SomamiR DB 2.0 Somatic mutations altering microRNA-ceRNA interactions
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Prediction criteria:	TargetScan sites only     All 6mer or longer seed matches

RefSeq ID:	NM_002122
Gene Symbol:	HLA-DQA1
Description:	Homo sapiens major histocompatibility complex, class II, DQ alpha 1 (HLA-DQA1), mRNA.
Gene Location:	chr6(+):32605182-32611429
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Somatic mutations that impact miRNA target sites

Mutation			Mutation ID		Sample Name		Cancer Type
chr6:g.32643138T>-			ICGC_ssm_v2_80159		HX13T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-548c-3p	acctcctGATTTTTttttt	0	CAAAAAUC	m7b	Disrupted	0.027000	0.030000	0.050000

Mutation			Mutation ID		Sample Name		Cancer Type
chr6:g.32643169A>T			ICGC_ssm_v2_80160		HX13T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-135b-3p	gttaCCTACAaagacatgc	0	AUGUAGGG	m6b	Disrupted	-0.147	no TS	6.58
hsa-miR-200c-5p	gttacctacTAAGACatgc	0	CGUCUUAC	m6b	Created	no TS	-0.082	0.48
hsa-miR-3674	gttacCTACAAagacatgc	0	AUUGUAGA	m6b	Disrupted	-0.066	no TS	2.75
hsa-miR-511	gttacctacAAAGACAtgc	0	GUGUCUUU	m7b	(m7b->m6c)	-0.032	no TS	0.19

Mutation			Mutation ID		Sample Name		Cancer Type
chr6:g.32643191A>G			ICGC_ssm_v2_24272		HX9T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change

No TargetScan sites are altered. To display all potentially impacted target sites, select "All 6mer or longer seed matches" above.

Mutation			Mutation ID		Sample Name		Cancer Type
chr6:g.32643195G>A			ICGC_ssm_v2_24273		HX9T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-5589-5p	aagccACCCAGCtacctaa	0	GGCUGGGU	m7b	Created	no TS	-0.173	-0.27

Mutation			Mutation ID		Sample Name		Cancer Type
chr6:g.32643596G>A			9_58971		CRC-6-Tumor		Colorectal adenocarcinoma
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change

No TargetScan sites are altered. To display all potentially impacted target sites, select "All 6mer or longer seed matches" above.

*By default, only target sites identified by TargetScan are displayed. To display all potentially impacted target sites, select "All 6mer or longer seed matches" above.

Germline mutations in target sites of miRNAs in somatic mutation table

Location	SNP ID	Ancestral Allele	Allele	miR ID	Conservation	miRSite	FuncClass	Validation	context+ score change
32643169	rs1130152	T	A	hsa-miR-135b-3p hsa-miR-3674 hsa-miR-511-5p hsa-miR-6830-3p hsa-miR-6844	5 4 5 5 5	aCCTACAAagaca acCTACAAAgaca acctacAAAGACA acctacAAAGACA acctACAAAGAca	Created Created Created Created Created	N N N N N	-0.147 -0.066 -0.032 -0.036 -0.098
			T	hsa-miR-200c-5p hsa-miR-550a-3p	5 5	acctacTAAGACA acctacTAAGACA	Disrupted Disrupted	N N	-0.082 -0.082
32643170	rs1130153	A	A	hsa-miR-135b-3p hsa-miR-3674 hsa-miR-511-5p hsa-miR-6830-3p hsa-miR-6844	5 4 5 5 5	CCTACAAagacat cCTACAAAgacat cctacAAAGACAt cctacAAAGACAt cctACAAAGAcat	Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N	-0.147 -0.066 -0.032 -0.036 -0.098
			C	hsa-miR-654-3p	4	cctacaCAGACAT	Created	N	-0.114
32643195	rs1130158	A
			A	hsa-miR-1293 hsa-miR-363-5p hsa-miR-4483 hsa-miR-5589-5p hsa-miR-6745 hsa-miR-6756-5p hsa-miR-6766-5p hsa-miR-6776-5p	0	CCACCCAgctacc CCACCCAgctacc CCACCCAgctacc ccACCCAGCtacc CCACCCAgctacc CCACCCAgctacc CCACCCAgctacc cCACCCAGctacc	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N N N	-0.166 -0.163 -0.162 -0.173 -0.16 -0.153 -0.139 -0.131

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