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_001198999
Gene Symbol:	SEMA6D
Description:	Homo sapiens sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D (SEMA6D), transcript variant 7, mRNA.
Gene Location:	chr15(+):47476402-48066420
Browse Associations
Browse Pathways

Somatic mutations that impact miRNA target sites

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47771810G>T			COSN5398008		RK088_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4422	ttcccatgtTGCTTTatcc	19	AAAAGCAU	m6b	Created	-0.258000	-0.318000	-1.550000
hsa-miR-449b-3p	ttcccaTGTGGCTttatcc	16	CAGCCACA	m7b	Disrupted	-0.244000	no TS	4.380000
hsa-miR-4717-3p	ttcCCATGTGgctttatcc	7	ACACAUGG	m7b	(m7b->m6b)	-0.130000	0.022000	0.330000

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47771811G>T			COSN5398009		RK088_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3617	tcccatgTGTCTTTatcct	0	AAAGACAU	m7a	Created	NA	NA	-0.240000
hsa-miR-449b-3p	tcccaTGTGGCTttatcct	16	CAGCCACA	m7b	Disrupted	-0.244000	no TS	4.380000
hsa-miR-4643	tccCATGTGTCtttatcct	0	GACACAUG	m8a	Created	-0.328000	-0.454000	No effect
hsa-miR-4717-3p	tcCCATGTGTctttatcct	7	ACACAUGG	m8a	(m7a->m8a)	-0.130000	-0.159000	-1.200000
hsa-miR-548u	tcccatgtGTCTTTatcct	0	CAAAGACU	m6b	Created	no TS	-0.054000	-0.020000
hsa-miR-641	tcccatgTGTCTTTatcct	0	AAAGACAU	m7a	Created	NA	NA	-5.030000
hsa-miR-642a-3p	tcccATGTGTCTttatcct	0	AGACACAU	m8a	Created	no TS	-0.148000	-1.110000
hsa-miR-642b-3p	tcccATGTGTCTttatcct	0	AGACACAU	m8a	Created	no TS	-0.148000	-1.250000

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47771869G>T			COSN8745544		AOCS-119-3-9		[ovary][NS][other][neoplasm]
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
chr15:g.47772175T>A			COSN1677699		RK027_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-5580-3p	acattttaATATGTatgca	13	CACAUAUG	m6b	Disrupted	-0.059000	-0.048000	No effect
hsa-miR-5580-3p	acattttaATATGTatgca	0	CACAUAUG	m6b	Disrupted	-0.059	-0.048	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47772630A>C			COSN8174060		PCSI_0224_Pa_P_526		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-2054	tattcATTACAacttgtat	9	CUGUAAUA	m6b	Created	-0.154000	-0.119000	-0.010000
hsa-miR-382-5p	tattcattACAACTTgtat	0	GAAGUUGU	m7b	Created	no TS	-0.060000	-0.130000

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47772804C>T			COSN8745545		AOCS-055-1-7		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3175	gttcgttTCTCCCCcccca	0	CGGGGAGA	m7b	Created	no TS	-0.123000	0.880000
hsa-miR-4723-5p	gttcgtttCTCCCCCccca	0	UGGGGGAG	m7b	Created	no TS	-0.175000	-2.400000
hsa-miR-5698	gttcgtttCTCCCCCccca	0	UGGGGGAG	m7b	Created	no TS	-0.175000	-0.660000
hsa-miR-625-5p	gttcgtTTCCCCCccccca	0	AGGGGGAA	m7b	Disrupted	-0.084000	no TS	3.390000

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47773335G>T			COSN8745546		AOCS-061-1-8		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4496	tcaaatgagGTTTCCTggg	4	GAGGAAAC	m7b	(m7b->m6c)	0.043000	0.043000	1.600000

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47773407C>T			COSN8174061		PCSI_0083_Pa_P_526		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3157-5p	aaccacttaTGGCTGAtga	0	UUCAGCCA	m7b	(m6c->m7b)	no TS	-0.184000	-3.870000
hsa-miR-4691-3p	aaccacttaTGGCTGatga	0	CCAGCCAC	m6b	Created	no TS	-0.079000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr15:g.47774030A>G			COSN5398010		RK102_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4724-3p	tgcaAAGGTAaacgcagat	0	GUACCUUC	m6b	Disrupted	-0.067000	0.021000	No effect

*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
47772036	rs138849071	G	G	hsa-miR-4643 hsa-miR-466 hsa-miR-4789-3p	8 8 8	agagATGTGTAgc agagATGTGTAgc agagATGTGTAgc	Disrupted Disrupted Disrupted	N N N	-0.042 -0.034 -0.033
			A	hsa-miR-221-3p hsa-miR-222-3p hsa-miR-3675-3p hsa-miR-5580-3p	11 11 9 8	agagatATGTAGC agagatATGTAGC AGAGATAtgtagc agagATATGTAgc	Created Created Created Created	N N N N	-0.183 -0.183 -0.082 -0.006
47772803	rs58520264	-	-	hsa-miR-625-5p hsa-miR-6795-5p hsa-miR-6887-5p	0	ttcgtTTCCCCCccc ttcgttTCCCCCCcc ttcgttTCCCCCCcc	Unknown Unknown Unknown	N N N	-0.016 -0.027 -0.02
			CC
47772803	rs74779121	-	C	hsa-miR-625-5p hsa-miR-6795-5p hsa-miR-6887-5p	0	tcgtTTCCCCCcc tcgttTCCCCCCc tcgttTCCCCCCc	Unknown Unknown Unknown	N N N	0.007 0.019 0.019
			-
47772847	rs72735867	C	C	hsa-miR-328-5p hsa-miR-6795-5p hsa-miR-6835-5p hsa-miR-6885-5p hsa-miR-6887-5p hsa-miR-7109-5p	3 6 5 6 6 6	ctcctaCCCCCCA ctcctaCCCCCCA ctccTACCCCCca ctcctaCCCCCCA ctcctaCCCCCCA ctcctaCCCCCCA	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N	-0.176 -0.165 -0.109 -0.162 -0.172 -0.206
			T	hsa-miR-1275 hsa-miR-4525 hsa-miR-4665-5p hsa-miR-4723-5p hsa-miR-5010-5p hsa-miR-5191 hsa-miR-5698 hsa-miR-625-5p hsa-miR-6870-5p hsa-miR-7111-5p	3 3 3 3 3 4 6 6 6 6	ctcctaTCCCCCA ctcctATCCCCCA ctcctaTCCCCCA ctcctaTCCCCCA ctcctATCCCCCA ctCCTATCCccca ctcctaTCCCCCA ctcctaTCCCCCA ctcctaTCCCCCA ctcctaTCCCCCA	Created Created Created Created Created Created Created Created Created Created	N N N N N N N N N N	-0.139 -0.211 -0.153 -0.115 -0.253 -0.092 -0.108 -0.106 -0.111 -0.115
47773047	rs139635748	A	A	hsa-miR-4536-5p hsa-miR-4717-3p	6 10	TACCACAtgtgag taccaCATGTGAg	Disrupted Disrupted	N N	-0.059 0.022
			G	hsa-miR-342-3p	12	taccacGTGTGAG	Created	N	-0.05
47774152	rs140607015	T	T	hsa-miR-3941 hsa-miR-4643 hsa-miR-466 hsa-miR-4672 hsa-miR-4789-3p	19 18 18 19 18	tgtggaTGTGTAA tgtggATGTGTAa tgtggATGTGTAA tgtggaTGTGTAA tgtggATGTGTAa	Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N	-0.09 -0.106 -0.273 -0.106 -0.098

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