SomamiR DB 2.0 Somatic mutations altering microRNA-ceRNA interactions
	Home	Search	Help	Download

Prediction criteria:	TargetScan sites only     All 6mer or longer seed matches

RefSeq ID:	NM_004786
Gene Symbol:	TXNL1
Description:	Homo sapiens thioredoxin-like 1 (TXNL1), transcript variant 1, mRNA.
Gene Location:	chr18(-):54270052-54305920
Browse Associations

Somatic mutations that impact miRNA target sites

Mutation			Mutation ID		Sample Name		Cancer Type
chr18:g.56602935T>G			COSN9840884		C0011T		[kidney][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-5700	atgtttcATGCATTgccat	0	UAAUGCAU	m7b	Created	no TS	-0.117000	-0.780000

Mutation			Mutation ID		Sample Name		Cancer Type
chr18:g.56602950C>T			COSN1082153		TCGA-AP-A051-01		[endometrium][NS][carcinoma][endometrioid_carcinoma]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-216b	cgccAGAGATTgtcaatgt	0	AAAUCUCU	m7b	Created	no TS	-0.081000	-2.000000
hsa-miR-4645-3p	cgccagagACTGTCaatgt	16	AGACAGUA	m6b	Disrupted	-0.148000	no TS	0.210000
hsa-miR-593-3p	cgcCAGAGACtgtcaatgt	19	UGUCUCUG	m7b	(m7b->m6c)	-0.136000	no TS	2.400000
hsa-miR-216b	cgccAGAGATTgtcaatgt	0	AAAUCUCU	m7b	Created	no TS	-0.081	-2
hsa-miR-4645-3p	cgccagagACTGTCaatgt	0	AGACAGUA	m6b	Disrupted	-0.148	no TS	0.21
hsa-miR-593-3p	cgcCAGAGACtgtcaatgt	0	UGUCUCUG	m7b	(m7b->m6c)	-0.136	no TS	2.4

Mutation			Mutation ID		Sample Name		Cancer Type
chr18:g.56602958G>C			COSN522561		TCGA-AR-A250-01		[breast][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3150a-3p	ttgattCTCCCCAGagact	0	CUGGGGAG	m8a	Created	no TS	-0.268000	-6.020000
hsa-miR-3175	ttgatTCTCCCCagagact	0	CGGGGAGA	m7b	Created	no TS	-0.481000	-12.250000
hsa-miR-326	ttgattctcCCCAGAGact	14	CCUCUGGG	m7b	(m6b->m7b)	-0.126000	-0.382000	-3.030000
hsa-miR-330-5p	ttgattctcCCCAGAGAct	14	UCUCUGGG	m8a	(m7a->m8a)	-0.126000	-0.382000	-2.230000
hsa-miR-4314	ttgattctcCCCAGAGact	0	CUCUGGGA	m7a	(m6a->m7a)	NA	NA	0.081000
hsa-miR-4667-5p	ttgattcTCCCCAGagact	0	ACUGGGGA	m7b	Created	no TS	-0.434000	-6.030000
hsa-miR-4700-5p	ttgattcTCCCCAGAgact	0	UCUGGGGA	m8a	Created	no TS	-0.413000	-0.520000
hsa-miR-637	ttgattctCCCCAGagact	0	ACUGGGGG	m6b	Created	no TS	-0.173000	-9.160000

Mutation			Mutation ID		Sample Name		Cancer Type
chr18:g.56602961C>A			COSN522562		TCGA-A8-A06X-01		[breast][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.

*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
56602857	rs1801947	A	A	hsa-miR-4666b hsa-miR-5011-3p hsa-miR-7849-3p	9 9 9	CATGCAAttgtaa CATGCAAttgtaa catgCAATTGTAa	Disrupted Disrupted Disrupted	N N N	-0.155 -0.159 -0.244
			T	hsa-miR-105-5p hsa-miR-520d-5p hsa-miR-524-5p hsa-miR-5700 hsa-miR-7853-5p	9 9 9 9 9	catGCATTTGtaa catgcaTTTGTAA catgcaTTTGTAA cATGCATTtgtaa catGCATTTGtaa	Created Created Created Created Created	N N N N N	-0.215 -0.006 -0.013 -0.142 -0.206

Genome Browser