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_153051
Gene Symbol:	MTMR3
Description:	Homo sapiens myotubularin related protein 3 (MTMR3), transcript variant 3, mRNA.
Gene Location:	chr22(+):30279157-30426857
Browse Associations

Mutation			Mutation ID		Sample Name		Cancer Type
chr22:g.30026049->T			ICGC_ssm_v3_5277		BN15T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change

Mutation			Mutation ID		Sample Name		Cancer Type
chr22:g.30026338C>T			COSN8997261		8069337		[pancreas][NS][carcinoid-endocrine_tumour][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4700-3p	tcccTCCTGTGaggagctg	1	CACAGGAC	m7a	Created	-0.031000	-0.031000	No effect
hsa-miR-4722-5p	tccCTCCTGCgaggagctg	0	GGCAGGAG	m7b	(m7b->m6b)	-0.263000	-0.189000	0.250000
hsa-miR-513a-5p	tccctCCTGTGAggagctg	0	UUCACAGG	m7b	Created	no TS	-0.045000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr22:g.30026471G>A			COSN10029400		C0098T		[kidney][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4749-3p	gcaggcGAGGGGCtgggag	0	CGCCCCUC	m7b	Disrupted	-0.348000	-0.227000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr22:g.30027189A>G			COSN1897052		RK052_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3177-3p	ggggagGCCGTGCttgact	9	UGCACGGC	m7b	Created	-0.213000	-0.322000	-0.020000

Mutation			Mutation ID		Sample Name		Cancer Type
chr22:g.30028196G>C			COSN15585972		C0084T		[kidney][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-15a-5p	tttttagcTGCTGCTctga	8	UAGCAGCA	m7b	Disrupted	-0.597000	-0.602000	0.010000
hsa-miR-15b-5p	tttttagcTGCTGCTctga	8	UAGCAGCA	m7b	Disrupted	-0.600000	-0.615000	No effect
hsa-miR-16-5p	tttttagcTGCTGCTctga	8	UAGCAGCA	m7b	Disrupted	-0.579000	-0.594000	No effect
hsa-miR-195-5p	tttttagcTGCTGCTctga	8	UAGCAGCA	m7b	Disrupted	-0.580000	-0.595000	No effect
hsa-miR-28-5p	tttttAGCTCCTgctctga	2	AAGGAGCU	m7b	Created	-0.073000	-0.087000	No effect
hsa-miR-3139	tttttAGCTCCTgctctga	2	UAGGAGCU	m7b	Created	-0.080000	-0.122000	No effect
hsa-miR-4633-3p	ttttTAGCTCCTgctctga	0	AGGAGCUA	m8a	Created	no TS	-0.041000	-2.180000
hsa-miR-4722-5p	tttttagCTCCTGCtctga	0	GGCAGGAG	m7b	Created	-0.263000	-0.263000	0.310000
hsa-miR-610	tttTTAGCTCctgctctga	2	UGAGCUAA	m7b	(m6b->m7b)	0.044000	0.055000	-0.540000
hsa-miR-646	tttttAGCTGCTgctctga	8	AAGCAGCU	m7b	Disrupted	-0.497000	-0.471000	0.120000
hsa-miR-708-5p	tttttAGCTCCTgctctga	2	AAGGAGCU	m7b	Created	-0.093000	-0.135000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr22:g.30029188T>A			COSN5990807		RK136_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3938	tagAGGGAATTtggtctga	1	AAUUCCCU	m8a	Disrupted	0.150000	0.085000	No effect
hsa-miR-4446-5p	tagAGGGAAATtggtctga	0	AUUUCCCU	m8a	Created	0.171000	0.267000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr22:g.30030632A>G			COSN1260674		HX16T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4313	tcagcgaggAGGGGGCggg	0	AGCCCCCU	m7b	(m7b->m6c)	-0.412000	-0.285000	-1.270000
hsa-miR-4667-3p	tcagcgAGGAGGGggcggg	0	UCCCUCCU	m7b	Disrupted	-0.186000	-0.116000	0.100000
hsa-miR-5193	tcagcGAGGAGGgggcggg	2	UCCUCCUC	m7b	Disrupted	-0.068000	-0.018000	0.130000
hsa-miR-4313	tcagcgaggAGGGGGCggg	0	AGCCCCCU	m7b	(m7b->m6c)	-0.412	-0.285	-1.27
hsa-miR-4667-3p	tcagcgAGGAGGGggcggg	0	UCCCUCCU	m7b	Disrupted	-0.186	-0.116	0.1
hsa-miR-5193	tcagcGAGGAGGgggcggg	2	UCCUCCUC	m7b	Disrupted	-0.068	-0.018	0.13

**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
30025844	rs200478028	A	A	hsa-miR-215-3p hsa-miR-3914	2 2	gttcctATGACAG GTTCCTAtgacag	Disrupted Disrupted	N N	-0.082 -0.094
30025844	rs200478028	A	G	hsa-miR-513a-5p hsa-miR-6773-3p hsa-miR-873-5p	2 2 2	gttCCTGTGAcag gttcctGTGACAG GTTCCTGtgacag	Created Created Created	N N N	-0.138 -0.116 -0.129
30025882	rs115041927	G	G	hsa-miR-3177-3p hsa-miR-6749-5p	11 11	aggcCCGTGCAct AGGCCCGtgcact	Disrupted Disrupted	N N	-0.213 -0.269
30025882	rs115041927	G	A	hsa-miR-2861 hsa-miR-5011-3p	11 11	AGGCCCAtgcact aggcCCATGCAct	Created Created	N N	-0.187 -0.115
30026109	rs111541457	C	C	hsa-miR-214-3p hsa-miR-3619-5p hsa-miR-4514 hsa-miR-4690-5p hsa-miR-4692 hsa-miR-761	7 7 2 4 2 10	agctgCCTGCTGt agctgCCTGCTGt agCTGCCTGctgt agctGCCTGCTgt agCTGCCTGctgt agctgCCTGCTGt	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N	-0.125 -0.116 -0.099 -0.185 -0.099 -0.097
30026109	rs111541457	C	T	hsa-miR-3120-3p hsa-miR-646	9 3	agctgcTTGCTGT AGCTGCTtgctgt	Created Created	N N	-0.024 -0.066
30026339	rs112326125	G	G	hsa-miR-4268	2	tcctgcGAGGAGC	Disrupted	N	-0.127
30026339	rs112326125	G	A	hsa-miR-1286 hsa-miR-1915-5p hsa-miR-4448 hsa-miR-4722-5p hsa-miR-502-5p hsa-miR-6511b-5p hsa-miR-6811-5p hsa-miR-6841-3p	2 2 2 2 2 2 2 2	TCCTGCAaggagc tcctGCAAGGAgc tcctgcAAGGAGC TCCTGCAaggagc tcctGCAAGGAgc tCCTGCAAggagc tCCTGCAAggagc tccTGCAAGGAgc	Created Created Created Created Created Created Created Created	N N N N N N N N	-0.1 -0.047 -0.079 -0.146 -0.093 -0.058 -0.051 -0.157
30026468	rs140836436	G	G	hsa-miR-4749-3p hsa-miR-6078 hsa-miR-6795-3p hsa-miR-6803-3p	11 2 2 2	gcaggcGAGGGGC gCAGGCGAggggc gcaggCGAGGGGc gcagGCGAGGGgc	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.121 -0.149 -0.091 -0.188
30026468	rs140836436	G	A	hsa-miR-1915-5p hsa-miR-4763-5p hsa-miR-6514-3p hsa-miR-6894-3p	2 2 2 2	gcaGGCAAGGggc GCAGGCAaggggc gCAGGCAAggggc GCAGGCAAggggc	Created Created Created Created	N N N N	-0.113 -0.176 -0.047 -0.215
30027528	rs116588341	A	A	hsa-miR-3162-3p hsa-miR-4446-5p hsa-miR-4755-5p hsa-miR-5006-3p hsa-miR-6883-3p	0	gcaGGTAGGGAaa gcaggtAGGGAAA gcaggtAGGGAAA gcaggtAGGGAAA gcaggTAGGGAAa	Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N	-0.183 0.029 0.052 0.052 -0.007
30027528	rs116588341	A	G	hsa-miR-1224-3p hsa-miR-2355-5p hsa-miR-3679-3p hsa-miR-4286	8 0 0 0	gcAGGTGGGgaaa gcaggTGGGGAAa gcaggtGGGGAAA gcagGTGGGGAaa	Created Created Created Created	N N N N	-0.005 -0.007 0.008 -0.053
30027532	rs144741450	G	A	hsa-miR-3162-3p hsa-miR-4446-5p hsa-miR-4755-5p hsa-miR-5006-3p hsa-miR-6883-3p	0	GTAGGGAaaaagt gtAGGGAAAAagt gtAGGGAAAaagt gtAGGGAAAaagt gTAGGGAAaaagt	Created Created Created Created Created	N N N N N	-0.08 0.029 0.052 0.052 -0.007
30027532	rs144741450	G	G	hsa-miR-3679-3p hsa-miR-5003-3p hsa-miR-6826-3p	0	gtaGGGGAAAagt gtagggGAAAAGT gtAGGGGAAaagt	Disrupted Disrupted Disrupted	N N N	0.006 0.18 -0.008
30028334	rs184928141	C	C	hsa-miR-18a-3p hsa-miR-1913 hsa-miR-324-3p hsa-miR-4313 hsa-miR-4727-5p hsa-miR-5001-3p hsa-miR-544a hsa-miR-6738-3p	3 3 3 2 4 4 2 2	tggGGGCAGAaat tgGGGGCAGAaat tgGGGGCAGAaat tGGGGGCAgaaat tgggGGCAGAAat tgggGGCAGAAat tggggGCAGAAAt tgggGGCAGAAAt	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N N N	-0.04 -0.125 -0.125 -0.095 -0.002 -0.002 0.069 0.007
30028334	rs184928141	C	T	hsa-miR-4640-3p hsa-miR-6798-3p	2 2	tGGGGGTAgaaat tGGGGGTAgaaat	Created Created	N N	-0.091 -0.124
30029036	rs183232470	T	T	hsa-miR-3919	2	aaagcTTCTCTGg	Disrupted	N	0.18
30029036	rs183232470	T	G	hsa-miR-2278 hsa-miR-646 hsa-miR-6501-3p	2 1 2	aaagCTGCTCTgg aaAGCTGCTctgg aaagcTGCTCTGg	Created Created Created	N N N	0.081 0.012 0.12
30030638	rs145174000	C	C	hsa-miR-4313 hsa-miR-7108-3p	1 2	AGGGGGCgggggg aggGGGCGGGggg	Disrupted Disrupted	N N	-0.127 -0.221
30030638	rs145174000	C

**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