SomamiR DB

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

PolymiRTS Database

RefSeq ID:	NM_004273
Gene Symbol:	CHST3
Description:	Homo sapiens carbohydrate (chondroitin 6) sulfotransferase 3 (CHST3), mRNA.
Gene Location:	chr10(+):73724119-73773322
Browse Associations

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72008727G>T			COSN10072331		C0032T		[kidney][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1538	ggcaggcCCGGGCCtgttg	2	CGGCCCGG	m7b	Disrupted	-0.426000	-0.132000	0.200000
hsa-miR-1972	ggcaggcccTGGCCTGttg	3	UCAGGCCA	m7b	(m6c->m7b)	-0.036000	-0.151000	No effect
hsa-miR-3918	ggcaGGCCCTGgcctgttg	0	ACAGGGCC	m7b	Created	-0.119000	-0.289000	No effect
hsa-miR-4512	ggcAGGCCCTGgcctgttg	0	CAGGGCCU	m8a	Created	-0.099000	-0.218000	No effect
hsa-miR-4685-5p	ggcagGCCCTGGcctgttg	0	CCCAGGGC	m7b	Created	-0.079000	-0.222000	No effect
hsa-miR-4745-3p	ggcaggcCCGGGCCtgttg	2	UGGCCCGG	m7b	Disrupted	-0.360000	-0.104000	No effect
hsa-miR-4747-3p	ggcaggccCGGGCCTgttg	3	AAGGCCCG	m7b	Disrupted	-0.396000	-0.182000	0.090000

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72008922G>C			COSN8719818		AOCS-081-1-1		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1976	gggtccttGCAGGAGGggc	4	CCUCCUGC	m8a	Created	-0.046000	-0.140000	No effect
hsa-miR-2276	gggtcCTTGCAGgaggggc	6	UCUGCAAG	m7b	Created	-0.087000	-0.116000	No effect
hsa-miR-4691-5p	gggtcctTGGAGGAggggc	2	GUCCUCCA	m7b	Disrupted	0.005000	0.068000	No effect
hsa-miR-4708-3p	gggtCCTTGCaggaggggc	0	AGCAAGGC	m6b	Created	no TS	-0.051000	No effect
hsa-miR-4772-3p	gggtccTTGCAGGaggggc	6	CCUGCAAC	m7a	Created	-0.123000	-0.123000	No effect
hsa-miR-5193	gggtccttgGAGGAGGggc	2	UCCUCCUC	m7b	(m7b->m6c)	0.052000	0.139000	No effect
hsa-miR-5695	gggtcCTTGGAGgaggggc	2	ACUCCAAG	m7b	Disrupted	0.161000	0.176000	1.980000
hsa-miR-660-3p	gggtccttgCAGGAGGggc	4	ACCUCCUG	m7b	(m6c->m7b)	0.268000	0.223000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72009095G>A			COSN10072332		C0002T		[kidney][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-let-7d-3p	cacacatgCGTATAGacat	0	CUAUACGA	m7a	Disrupted	NA	NA	0.160000
hsa-let-7e-3p	cacacatgCGTATAGacat	0	CUAUACGG	m7a	Disrupted	NA	NA	0.010000
hsa-miR-4666b	cacACATGCAtatagacat	0	UUGCAUGU	m7b	(m6b->m7b)	-0.231000	-0.370000	-1.150000

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72009565C>T			CHST3_E3_UTR_3		SJHYPO036_D		Hypodiploid_ALL
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3667-5p	ctcacgGGGTCTTccattt	0	AAAGACCC	m7b	Created	no TS	-0.006	No effect
hsa-miR-4493	ctcacggGGCCTTCcattt	2	AGAAGGCC	m7b	Disrupted	-0.038	-0.03	0.01
hsa-miR-7-5p	ctcacgggGTCTTCCAttt	0	UGGAAGAC	m8a	Created	0.077	0.056	-2.83

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72009795T>G			9_48727		CRC-5-Tumor		Colorectal adenocarcinoma
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3065-5p	tgtTTTGTTGcgggctttt	0	UCAACAAA	m7b	(m6b->m7b)	0.217	0.36	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72010012A>T			COSN8640457		3498_T		[lung][NS][carcinoma][squamous_cell_carcinoma]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-128	gcaggcCACTGTGccctat	0	UCACAGUG	m7b	Created	0.074000	0.245000	No effect
hsa-miR-3677-5p	gcaGGCCACTGtgccctat	0	CAGUGGCC	m8a	Created	no TS	-0.017000	No effect
hsa-miR-3681-3p	gcaggcCACTGTGccctat	0	ACACAGUG	m7b	Created	0.046000	0.180000	-0.140000
hsa-miR-4318	gcaggCCACAGTGccctat	7	CACUGUGG	m8a	Disrupted	0.107000	no TS	No effect
hsa-miR-5693	gcagGCCACTGtgccctat	0	GCAGUGGC	m7b	Created	no TS	0.075000	-0.050000

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72010198G>A			COSN1499972		RK066_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3655	atgacaagCGACAAGtgta	1	GCUUGUCG	m7b	Disrupted	0.044000	no TS	1.970000
hsa-miR-744-3p	atgacaaGCAACAagtgta	2	CUGUUGCC	m6b	Created	0.002000	0.064000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72010952G>A			COSN5883132		RK190_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1263	tctgaggatGGTACCAaga	0	AUGGUACC	m7b	(m7b->m6c)	-0.077000	0.010000	0.830000
hsa-miR-181c-3p	tctgagGATGGTaccaaga	1	AACCAUCG	m6b	Disrupted	0.019000	no TS	7.330000
hsa-miR-5196-3p	tctGAGGATGgtaccaaga	2	UCAUCCUC	m7b	(m7b->m6b)	0.058000	no TS	0.080000

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72011454T>C			COSN1499973		RK106_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1262	agTCACCCATgtggatatg	1	AUGGGUGA	m8a	(m8a->m7a)	0.025000	0.052000	No effect
hsa-miR-4701-3p	agTCACCCATgtggatatg	1	AUGGGUGA	m8a	(m8a->m7a)	0.044000	0.071000	No effect
hsa-miR-4717-3p	agtcacCCATGTGgatatg	0	ACACAUGG	m7b	Disrupted	0.177000	0.146000	3.900000
hsa-miR-5092	agtcacccaCGTGGATatg	1	AAUCCACG	m7b	(m6c->m7b)	-0.008000	-0.067000	No effect
hsa-miR-1262	agTCACCCATgtggatatg	0	AUGGGUGA	m8a	(m8a->m7a)	0.025	0.052	No effect
hsa-miR-4701-3p	agTCACCCATgtggatatg	0	AUGGGUGA	m8a	(m8a->m7a)	0.044	0.071	No effect
hsa-miR-4717-3p	agtcacCCATGTGgatatg	1	ACACAUGG	m7b	Disrupted	0.177	0.146	3.9
hsa-miR-5092	agtcacccaCGTGGATatg	0	AAUCCACG	m7b	(m6c->m7b)	-0.008	-0.067	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr10:g.72011689A>G			COSN6405555		HX36T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change

**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
72008639	rs182175534	G
72008639	rs182175534	G	A	hsa-miR-2117 hsa-miR-2276-3p hsa-miR-3191-5p hsa-miR-4772-3p hsa-miR-6728-3p	2 1 2 1 2	aattgcAGAGAAC aaTTGCAGAgaac aattgCAGAGAAc aaTTGCAGAgaac aattGCAGAGAac	Created Created Created Created Created	N N N N N	-0.144 -0.069 -0.069 -0.078 -0.115
72008726	rs114569872	C	C	hsa-miR-1538 hsa-miR-2861 hsa-miR-4745-3p hsa-miR-4747-3p hsa-miR-6749-5p	5 4 5 6 4	caggcCCGGGCCt CAGGCCCgggcct caggcCCGGGCCt caggccCGGGCCT cAGGCCCGggcct	Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N	-0.294 -0.136 -0.256 -0.214 -0.192
72008726	rs114569872	C	T	hsa-miR-4650-5p	4	cAGGCCTGggcct	Created	N	-0.104
72008868	rs138805155	G	G	hsa-miR-21-3p hsa-miR-3591-3p	2 2	tattTGGTGTTAa tattTGGTGTTAa	Disrupted Disrupted	N N	-0.278 -0.288
72008868	rs138805155	G	T	hsa-miR-3065-5p hsa-miR-3529-3p hsa-miR-7-1-3p hsa-miR-7-2-3p	2 2 2 2	taTTTGTTGttaa tatTTGTTGTtaa tATTTGTTgttaa tATTTGTTgttaa	Created Created Created Created	N N N N	-0.085 -0.101 -0.016 -0.006
72009326	rs181471425	A	A	hsa-miR-1910-5p hsa-miR-455-3p	9 8	gtttGGACTGAac gttTGGACTGAac	Disrupted Disrupted	N N	-0.066 -0.175
72009326	rs181471425	A	C	hsa-miR-1972 hsa-miR-3926 hsa-miR-4650-5p	8 6 9	gttTGGCCTGAac gTTTGGCCtgaac gtttGGCCTGAac	Created Created Created	N N N	-0.231 -0.019 -0.093
72009749	rs4148943	T	C	hsa-miR-1915-3p hsa-miR-3918 hsa-miR-4685-5p hsa-miR-4726-3p hsa-miR-6764-5p hsa-miR-6837-5p hsa-miR-6840-3p hsa-miR-7160-3p	1 1 1 1 1 1 1 1	tagggCCCTGGGA tagGGCCCTGgga taggGCCCTGGga tagggcCCTGGGA tagggCCCTGGGA taggGCCCTGGga tagggcCCTGGGA taGGGCCCTggga	Created Created Created Created Created Created Created Created	N N N N N N N N	-0.096 -0.076 -0.06 -0.027 -0.086 -0.078 -0.007 -0.122
72009749	rs4148943	T	T	hsa-miR-1233-3p	1	tAGGGCTCtggga	Disrupted	N	-0.07
72009897	rs76062174	T	T	hsa-miR-4687-5p	3	GAGGGCTtgaggg	Disrupted	N	-0.029
72009897	rs76062174	T	C	hsa-miR-1972 hsa-miR-4650-5p	2 2	gagGGCCTGAggg gagGGCCTGAggg	Created Created	N N	0.009 0.014
72009993	rs150772968	T	T	hsa-miR-4701-5p hsa-miR-588 hsa-miR-6800-3p	5 5 2	gagagGTGGCCAc gagagGTGGCCAc GAGAGGTggccac	Disrupted Disrupted Disrupted	N N N	0.044 0.053 0.101
72009993	rs150772968	T	A	hsa-miR-3183 hsa-miR-4723-3p hsa-miR-4757-5p hsa-miR-5193 hsa-miR-6744-3p hsa-miR-6769b-3p hsa-miR-6791-3p hsa-miR-6829-3p hsa-miR-6878-3p hsa-miR-7111-3p	2 2 5 2 5 2 6 6 5 2	GAGAGGAggccac GAGAGGAggccac gagagGAGGCCAc gaGAGGAGGccac gagagGAGGCCAc GAGAGGAggccac gagAGGAGGCcac gagAGGAGGCcac gagagGAGGCCAc GAGAGGAggccac	Created Created Created Created Created Created Created Created Created Created	N N N N N N N N N N	0.067 0.046 -0.001 0.04 0.003 0.067 0.044 0.053 0.034 0.087
72011326	rs144248670	C	C	hsa-miR-5092	2	caagcgCGTGGAT	Disrupted	N	0.001
72011326	rs144248670	C
72011510	rs74145519	C	C	hsa-miR-1538 hsa-miR-4745-3p hsa-miR-4747-3p	2 2 2	ggtggCCGGGCCt ggtggCCGGGCCt ggtggcCGGGCCT	Disrupted Disrupted Disrupted	N N N	-0.132 -0.104 -0.053
72011510	rs74145519	C	T	hsa-miR-4691-3p	1	gGTGGCTGggcct	Created	N	0.068
72012256	rs1871450	G	G	hsa-miR-660-3p hsa-miR-6816-3p hsa-miR-6861-3p	4 6 6	CAGGAGGtccttc caggaGGTCCTTc cagGAGGTCCttc	Disrupted Disrupted Disrupted	N N N	0.028 -0.008 -0.04
72012256	rs1871450	G	A	hsa-miR-1976	4	CAGGAGAtccttc	Created	N	-0.066
72012355	rs77908871	A	A	hsa-miR-1295b-3p hsa-miR-4747-3p hsa-miR-6826-5p	2 3 1	gGGCCTATtgacc GGGCCTAttgacc gggCCTATTGAcc	Disrupted Disrupted Disrupted	N N N	-0.045 -0.129 0.07
72012355	rs77908871	A	G	hsa-miR-421 hsa-miR-4709-5p hsa-miR-505-3p	2 2 2	gggcCTGTTGAcc gggcCTGTTGAcc gggccTGTTGACc	Created Created Created	N N N	0.138 0.09 0.096
72013545	rs188494077	T	T	hsa-miR-4666b hsa-miR-5011-3p hsa-miR-6076 hsa-miR-6797-3p	7 7 1 1	aaatCATGCAAtg aaatCATGCAAtg aaaTCATGCAatg aaaTCATGCAatg	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.172 -0.17 -0.178 -0.188
72013545	rs188494077	T	C	hsa-miR-6821-5p	7	aaatCACGCAAtg	Created	N	-0.264
72013548	rs71479428	A	A	hsa-miR-4317 hsa-miR-4666b hsa-miR-5011-3p hsa-miR-6076 hsa-miR-6797-3p	10 7 7 1 1	tcatGCAATGAgc tCATGCAAtgagc tCATGCAAtgagc TCATGCAatgagc TCATGCAatgagc	Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N	-0.147 -0.172 -0.17 -0.178 -0.188
72013548	rs71479428	A	C	hsa-miR-3622b-5p hsa-miR-6847-3p	7 22	tCATGCCAtgagc tcatgcCATGAGC	Created Created	N N	-0.197 -0.244
72013549	rs145644739	A	A	hsa-miR-4317 hsa-miR-4666b hsa-miR-5011-3p hsa-miR-6847-3p	5 7 7 7	catGCAATGAgca CATGCAAtgagca CATGCAAtgagca catgcaATGAGCA	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.147 -0.172 -0.17 -0.152
72013549	rs145644739	A	G	hsa-miR-1178-3p hsa-miR-1304-3p hsa-miR-217 hsa-miR-6807-3p hsa-miR-6890-3p	6 4 3 3 5	catgcaGTGAGCA catgCAGTGAGca cATGCAGTgagca cATGCAGTgagca catGCAGTGAgca	Created Created Created Created Created	N N N N N	-0.294 -0.194 -0.186 -0.196 -0.153

**Genome Browser**
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Somatic mutations that impact miRNA target sites

Germline mutations in target sites of miRNAs in somatic mutation table

Genome Browser