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_001004125
Gene Symbol:	TUSC1
Description:	Homo sapiens tumor suppressor candidate 1 (TUSC1), mRNA.
Gene Location:	chr9(-):25676386-25678856
Browse Associations

Somatic mutations that impact miRNA target sites

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.25676589T>G			TUSC1_E1_UTR_3		SJHYPO046_D		Hypodiploid_ALL
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
chr9:g.25676628T>C			COSN5121199		HX25T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4315	acaaaAAAGCGactagttt	0	CCGCUUUC	m6b	Created	no TS	-0.171000	-2.600000
hsa-miR-4790-5p	acaaaAAAGCGActagttt	0	AUCGCUUU	m7b	Created	no TS	-0.283000	-2.080000

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.25676995T>C			COSN6386212		RK308_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4659a-5p	ttgaaATGGCAaataaatc	0	CUGCCAUG	m6b	Created	no TS	-0.130000	No effect
hsa-miR-4659b-5p	ttgaaATGGCAAataaatc	0	UUGCCAUG	m7a	Created	no TS	-0.130000	No effect
hsa-miR-4699-3p	ttgaaatgGTAAATaaatc	5	AAUUUACU	m6b	Disrupted	0.015000	no TS	0.460000
hsa-miR-4776-3p	ttgaaATGGCAAataaatc	0	CUUGCCAU	m7b	Created	no TS	-0.268000	No effect
hsa-miR-5590-5p	ttgaaATGGCAAataaatc	2	UUGCCAUA	m7a	Created	-0.285000	-0.416000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.25677214C>G			10_18630		6408		Breast cancer
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-186-5p	tcagctATTCTTTcatatg	2	CAAAGAAU	m7b	Disrupted	0.007	no TS	0.21
hsa-miR-494	tcagctatTGTTTCAtatg	1	UGAAACAU	m7a	Created	-0.071	-0.094	-0.04

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.25677302T>-			ICGC_ssm_v2_85718		HX13T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3148	tttttTTTTTCCtgtattt	0	UGGAAAAA	m7b	Disrupted	-0.052000	-0.049000	0.490000
hsa-miR-4700-3p	tttttttttTCCTGTattt	0	CACAGGAC	m6b	Disrupted	-0.141000	-0.140000	1.570000
hsa-miR-5095	tttttttttCCTGTAttt	0	UUACAGGC	m6b	Created	NA	NA	2.670000

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.25677515A>C			COSN6386213		RK308_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-548s	cgcTTGGCCATccgcttgg	8	AUGGCCAA	m8a	Disrupted	-0.208000	-0.149000	0.170000
hsa-miR-658	cgcttggcCCTCCGCttgg	0	GGCGGAGG	m7b	Created	no TS	-0.215000	-0.170000

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.25677668G>T			COSN14654011		PCSI_0090_Pa_X		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1229	gccgcagccGGTGAGAGgc	0	CUCUCACC	m8a	(m8a->m7a)	-0.058000	no TS	No effect
hsa-miR-4438	gccgcAGCCTGTGagaggc	0	CACAGGCU	m8a	Created	no TS	0.000000	No effect
hsa-miR-513a-5p	gccgcagCCTGTGAgaggc	0	UUCACAGG	m7b	Created	no TS	0.000000	No effect
hsa-miR-604	gcCGCAGCCTgtgagaggc	4	AGGCUGCG	m8a	(m7b->m8a)	0.000000	0.000000	No effect
hsa-miR-1229	gccgcagccGGTGAGAGgc	0	CUCUCACC	m8a	(m8a->m7a)	-0.058000	no TS	No effect
hsa-miR-4438	gccgcAGCCTGTGagaggc	0	CACAGGCU	m8a	Created	no TS	0.000000	No effect
hsa-miR-513a-5p	gccgcagCCTGTGAgaggc	0	UUCACAGG	m7b	Created	no TS	0.000000	No effect
hsa-miR-604	gcCGCAGCCTgtgagaggc	4	AGGCUGCG	m8a	(m7b->m8a)	0.000000	0.000000	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
25676427	rs79028168	A	A	hsa-miR-5590-5p	2	TATGGCAtagtcc	Disrupted	N	-0.285
			G	hsa-miR-122-3p	1	tATGGCGTAgtcc	Created	N	-0.586
25677217	rs12348	A	A	hsa-miR-186-5p hsa-miR-6507-5p	1 1	tcagctATTCTTT tcagcTATTCTTt	Disrupted Disrupted	N N	0.007 0.018
			G	hsa-miR-3133 hsa-miR-4773	1 2	tcagctGTTCTTT tcagCTGTTCTtt	Created Created	N N	-0.023 -0.086
25677302	rs74174596	-	T	hsa-miR-3148 hsa-miR-4700-3p	3 1	ttTTTTTCCtgta ttttttTCCTGTA	Unknown Unknown	N N	-0.003 -0.001
			-
25677302	rs78145805	T	T	hsa-miR-3148 hsa-miR-4700-3p	3 1	ttTTTTTCCtgta ttttttTCCTGTA	Disrupted Disrupted	N N	-0.019 -0.141
			C	hsa-miR-4668-5p hsa-miR-5584-5p	3 3	ttTTTTCCCtgta tttTTTCCCTgta	Created Created	N N	-0.192 -0.179

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