SomamiR DB

SomamiR DB 2.0 Somatic mutations altering microRNA-ceRNA interactions
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PolymiRTS Database

RefSeq ID:	NM_018557
Gene Symbol:	LRP1B
Description:	Homo sapiens low density lipoprotein receptor-related protein 1B (LRP1B), mRNA.
Gene Location:	chr2(-):140988995-142889270
Browse Associations

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140231450T>C			COSN4985407		SS6003137		[oesophagus][NS][carcinoma][adenocarcinoma]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-224-5p	ttgacTGACTTatttaaat	16	CAAGUCAC	m6b	Disrupted	-0.148000	no TS	1.040000
hsa-miR-3121-3p	ttgactgacCTATTTAaat	19	UAAAUAGA	m7a	(m6a->m7a)	-0.105000	-0.159000	-0.140000
hsa-miR-5692a	ttgactgacTTATTTaaat	0	CAAAUAAU	m6b	Disrupted	0.327000	0.312000	0.020000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140231486A>G			COSN1792485		RK071_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-136-5p	tctacAATGGAGTgttaaa	0	ACUCCAUU	m8a	Created	no TS	-0.189000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140231822T>C			COSN15423777		AOCS-139-19-0		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-187-3p	tgatAGACACGActgactt	0	UCGUGUCU	m8a	Created	no TS	-0.416000	-0.050000
hsa-miR-4711-3p	tgatAGACACGactgactt	0	CGUGUCUU	m7a	Created	NA	NA	0.010000
hsa-miR-187-3p	tgatAGACACGActgactt	0	UCGUGUCU	m8a	Created	no TS	-0.416000	-0.050000
hsa-miR-4711-3p	tgatAGACACGactgactt	0	CGUGUCUU	m7a	Created	NA	NA	0.010000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140231846G>T			COSN8607556		4095_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-3145-5p	gttTTGGAGTgctttttgt	0	AACUCCAA	m7b	(m6c->m7b)	no TS	-0.171000	0.020000
hsa-miR-4290	gttttGGAGGGCtttttgt	0	UGCCCUCC	m7b	Disrupted	-0.352000	no TS	8.890000
hsa-miR-4687-5p	gttttgGAGGGCTttttgt	15	CAGCCCUC	m7b	Disrupted	-0.246000	no TS	7.800000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140231847G>T			COSN8607557		4095_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-4290	agttttGGAGGGCtttttg	0	UGCCCUCC	m7b	Disrupted	-0.352000	no TS	8.890000
hsa-miR-4687-5p	agttttgGAGGGCTttttg	15	CAGCCCUC	m7b	Disrupted	-0.246000	no TS	6.070000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140232082A>G			COSN9064096		AOCS-080-1-9		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-2116-5p	tgtagAAGAACaatgatct	4	GGUUCUUA	m6b	Disrupted	-0.029000	no TS	3.270000
hsa-miR-22-5p	tgtaGAAGAACaatgatct	3	AGUUCUUC	m7b	Disrupted	-0.199000	no TS	0.090000
hsa-miR-4273	tgtagaAGAACAatgatct	0	GUGUUCUC	m6b	Disrupted	-0.019000	no TS	0.070000
hsa-miR-4289	tgtagaagaACAATGatct	18	GCAUUGUG	m6b	Disrupted	-0.130000	-0.107000	0.030000
hsa-miR-4317	tgtagaagaGCAATGatct	0	ACAUUGCC	m6b	Created	no TS	-0.061000	-4.300000
hsa-miR-4659a-3p	tgtAGAAGAAcaatgatct	3	UUUCUUCU	m7b	(m7b->m6c)	-0.048000	no TS	0.010000
hsa-miR-4659b-3p	tgtAGAAGAAcaatgatct	3	UUUCUUCU	m7b	(m7b->m6c)	-0.048000	no TS	0.010000
hsa-miR-4677-5p	tgtagAAGAACAAtgatct	0	UUGUUCUU	m8a	Disrupted	-0.097000	no TS	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140232528G>T			COSN8607558		824_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-499a-3p	ctatGTGATGTactaaatg	1	AACAUCAC	m7b	Disrupted	-0.271000	no TS	4.890000
hsa-miR-499b-3p	ctatGTGATGTactaaatg	1	AACAUCAC	m7b	Disrupted	-0.271000	no TS	9.380000
hsa-miR-551b-5p	ctatgTGATTTactaaatg	14	GAAAUCAA	m6b	Created	-0.136000	-0.100000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140232809G>A			COSN7342322		8012211		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1537	ccattatACGGTTTgaagg	0	AAAACCGU	m7b	Disrupted	-0.235000	no TS	3.780000
hsa-miR-548g-3p	ccattatACAGTTTgaagg	0	AAAACUGU	m7b	Created	no TS	-0.103000	-0.200000
hsa-miR-568	ccaTTATACAgtttgaagg	13	AUGUAUAA	m7b	(m6c->m7b)	-0.194000	-0.238000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140232916A>G			COSN1792486		RK002_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4775	gttAAAATTAAaaacaacg	5	UUAAUUUU	m8a	Disrupted	-0.016000	0.032000	No effect
hsa-miR-590-3p	gtTAAAATTAaaaacaacg	7	UAAUUUUA	m8a	(m8a->m7b)	0.148000	0.170000	No effect
hsa-miR-4775	gttAAAATTAAaaacaacg	5	UUAAUUUU	m8a	Disrupted	-0.016000	0.032000	No effect
hsa-miR-590-3p	gtTAAAATTAaaaacaacg	7	UAAUUUUA	m8a	(m8a->m7b)	0.148000	0.170000	No effect
hsa-miR-4775	gttAAAATTAAaaacaacg	0	UUAAUUUU	m8a	Disrupted	-0.016	0.032	No effect
hsa-miR-590-3p	gtTAAAATTAaaaacaacg	0	UAAUUUUA	m8a	(m8a->m7b)	0.148	0.17	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140232977C>A			COSN5482977		RK060_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-130a-3p	aaagaacTGCACTacagta	22	CAGUGCAA	m6b	Disrupted	-0.152000	no TS	0.020000
hsa-miR-130b-3p	aaagaacTGCACTacagta	22	CAGUGCAA	m6b	Disrupted	-0.148000	no TS	No effect
hsa-miR-143-5p	aaagaACTGCACtacagta	0	GGUGCAGU	m7b	Disrupted	-0.334000	-0.068000	0.100000
hsa-miR-301a-3p	aaagaacTGCACTacagta	22	CAGUGCAA	m6b	Disrupted	-0.155000	no TS	0.630000
hsa-miR-301b	aaagaacTGCACTacagta	22	CAGUGCAA	m6b	Disrupted	-0.155000	no TS	1.100000
hsa-miR-3666	aaagaacTGCACTacagta	22	CAGUGCAA	m6b	Disrupted	-0.152000	no TS	1.830000
hsa-miR-4277	aaAGAACTGCactacagta	0	GCAGUUCU	m8a	(m8a->m7b)	-0.203000	-0.352000	-0.300000
hsa-miR-4295	aaagaacTGCACTacagta	22	CAGUGCAA	m6b	Disrupted	-0.169000	no TS	0.190000
hsa-miR-4671-3p	aaagaacTGCACTAcagta	22	UUAGUGCA	m7b	Disrupted	-0.259000	no TS	3.110000
hsa-miR-5000-5p	aaagaaCTGAACTacagta	0	CAGUUCAG	m7b	Created	no TS	-0.360000	-1.030000
hsa-miR-584-3p	aaaGAACTGAactacagta	0	UCAGUUCC	m7a	(m6b->m7a)	no TS	-0.135000	-0.350000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140233024T>G			COSN5782232		HX31T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-4540	ttttgctgAGGACTAttga	0	UUAGUCCU	m7b	Created	no TS	-0.216000	-0.840000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140233057T>A			COSN8607559		J30_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-4666a-3p	gttaATTGTATtctgagtt	1	CAUACAAU	m7b	Created	-0.033000	-0.139000	-3.530000
hsa-miR-570-3p	gttaatTGTTTTCtgagtt	12	CGAAAACA	m7b	Disrupted	-0.153000	no TS	1.950000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140233126T>A			COSN9064097		AOCS-122-1-4		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-154-3p	ttttGTATGATccaacagt	0	AAUCAUAC	m7b	Created	no TS	-0.194000	-0.020000
hsa-miR-485-3p	tttTGTATGAtccaacagt	0	GUCAUACA	m7b	(m6c->m7b)	no TS	-0.237000	-2.340000
hsa-miR-487a	ttttGTATGATccaacagt	0	AAUCAUAC	m7b	Created	no TS	-0.222000	-0.050000
hsa-miR-539-3p	tttTGTATGATccaacagt	0	AUCAUACA	m8a	Created	no TS	-0.237000	-0.200000

Mutation			Mutation ID		Sample Name		Cancer Type
chr2:g.140233127G>T			COSN9064098		AOCS-122-1-4		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3148	cttttgtaTTTTCCAacag	9	UGGAAAAA	m7a	Created	-0.013000	-0.069000	-0.010000
hsa-miR-3978	cttttgtatTTTCCAacag	9	GUGGAAAG	m6b	Created	-0.034000	-0.124000	-0.020000

**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
140231735	rs190739739	T	T	hsa-miR-155-5p	16	caAGCATTAAaaa	Disrupted	N	-0.281
140231735	rs190739739	T	C	hsa-miR-3591-5p hsa-miR-4473 hsa-miR-4671-3p hsa-miR-512-3p hsa-miR-520f-3p hsa-miR-636	17 16 17 18 18 18	caagCACTAAAaa caAGCACTAAaaa caaGCACTAAaaa caAGCACTAaaaa cAAGCACTAaaaa CAAGCACtaaaaa	Created Created Created Created Created Created	N N N N N N	-0.092 -0.412 -0.163 -0.127 -0.314 -0.216
140231741	rs183507704	C	C	hsa-let-7a-2-3p hsa-let-7c-3p hsa-let-7g-3p hsa-miR-493-5p	18 18 18 18	ttTGTACAAgcat tTTGTACAAgcat ttTGTACAAgcat ttTGTACAAgcat	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.059 -0.195 -0.052 -0.056
140231741	rs183507704	C	T	hsa-let-7a-3p hsa-let-7b-3p hsa-let-7f-1-3p hsa-let-7f-2-3p hsa-miR-1185-1-3p hsa-miR-1185-2-3p hsa-miR-300 hsa-miR-381-3p hsa-miR-4666a-3p hsa-miR-4789-5p hsa-miR-98-3p	18 18 18 18 18 18 18 18 18 18 18	tTTGTATAAgcat tTTGTATAAgcat tTTGTATAAgcat ttTGTATAAgcat ttTGTATAAgcat ttTGTATAAgcat tTTGTATAagcat tTTGTATAagcat tTTGTATAagcat ttTGTATAAgcat tTTGTATAAgcat	Created Created Created Created Created Created Created Created Created Created Created	N N N N N N N N N N N	-0.077 -0.077 -0.098 -0.006 -0.019 -0.019 -0.002 -0.002 0.004 -0.022 -0.108
140232082	rs150474267	-	GAA	hsa-miR-2116-5p hsa-miR-22-5p hsa-miR-4273 hsa-miR-4289 hsa-miR-4659a-3p hsa-miR-4659b-3p hsa-miR-4677-5p hsa-miR-6739-3p hsa-miR-7156-5p	4 3 5 2 3 3 4 5 5	gtagAAGAACAatgatc gtaGAAGAACAatgatc gtagaAGAACAAtgatc gtagaagaACAATGAtc gtAGAAGAAcaatgatc gtAGAAGAAcaatgatc gtagAAGAACAAtgatc gtagaAGAACAAtgatc gtagaAGAACAAtgatc	Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N N N N	-0.029 -0.199 0.008 -0.007 -0.048 -0.048 -0.077 -0.002 0.005
140232082	rs150474267	-	-
140232084	rs201037514	G	G	hsa-miR-2116-5p hsa-miR-22-5p hsa-miR-4273 hsa-miR-4659a-3p hsa-miR-4659b-3p hsa-miR-4677-5p hsa-miR-6739-3p hsa-miR-7156-5p	4 3 5 3 3 4 5 5	gtagAAGAACAat gtaGAAGAACAat gtagaAGAACAAt gtAGAAGAAcaat gtAGAAGAAcaat gtagAAGAACAAt gtagaAGAACAAt gtagaAGAACAAt	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N N N	-0.029 -0.199 0.003 -0.048 -0.048 -0.082 0.001 No Change
140232084	rs201037514	G
140232086	rs200444225	-	AGA	hsa-miR-1283 hsa-miR-2116-5p hsa-miR-22-5p hsa-miR-4659a-3p hsa-miR-4659b-3p hsa-miR-4677-5p	3 4 3 3 3 4	agTTGTAGAagaacaat agttgtagAAGAACAat agttgtaGAAGAACAat agttgtAGAAGAAcaat agttgtAGAAGAAcaat agttgtagAAGAACAAt	Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N	-0.001 -0.029 -0.199 -0.048 -0.048 -0.077
140232086	rs200444225	-	-	hsa-miR-4273 hsa-miR-6739-3p hsa-miR-7156-5p	3 3 3	agttgtAGAACAAt agttgtAGAACAAt agttgtAGAACAAt	Unknown Unknown Unknown	N N N	-0.008 0.002 -0.005
140232825	rs188058479	C	C	hsa-miR-106a-5p hsa-miR-106b-5p hsa-miR-17-5p hsa-miR-20a-5p hsa-miR-20b-5p hsa-miR-2467-3p hsa-miR-3678-3p hsa-miR-519a-3p hsa-miR-519b-3p hsa-miR-519c-3p hsa-miR-519d-3p hsa-miR-526b-3p hsa-miR-548az-5p hsa-miR-548t-5p hsa-miR-93-5p	15 15 15 15 15 11 11 15 15 15 15 15 16 16 15	tctctGCACTTTt tctctGCACTTTt tctctGCACTTTt tctctGCACTTTt tctctGCACTTTt tCTCTGCActttt tCTCTGCActttt tctcTGCACTTtt tctcTGCACTTtt tctcTGCACTTtt tctctGCACTTTt tctctGCACTTTt tctctgCACTTTT tctctgCACTTTT tctctGCACTTTt	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N N N N N N N N N N	-0.113 -0.113 -0.113 -0.113 -0.113 -0.107 -0.208 -0.135 -0.135 -0.135 -0.113 -0.113 0.011 0.011 -0.104
140232825	rs188058479	C	A	hsa-miR-3919 hsa-miR-4756-3p hsa-miR-5000-5p	11 11 13	TCTCTGAactttt TCTCTGAactttt tctCTGAACTttt	Created Created Created	N N N	-0.079 -0.129 -0.193
140232828	rs139282977	C	C	hsa-miR-2467-3p hsa-miR-3678-3p hsa-miR-4756-3p	11 11 10	gaatCTCTGCAct gaatCTCTGCAct gaATCTCTGcact	Disrupted Disrupted Disrupted	N N N	-0.107 -0.208 -0.141
140232828	rs139282977	C	T	hsa-miR-130a-3p hsa-miR-130b-3p hsa-miR-19a-3p hsa-miR-19b-3p hsa-miR-301a-3p hsa-miR-301b hsa-miR-3666 hsa-miR-4295 hsa-miR-454-3p hsa-miR-518a-5p hsa-miR-527	13 13 13 13 13 13 13 13 13 11 11	gaatctTTGCACT gaatctTTGCACT gaatcTTTGCACt gaatcTTTGCACt gaatctTTGCACT gaatctTTGCACT gaatctTTGCACT gaatctTTGCACT gaatctTTGCACT gaatCTTTGCAct gaatCTTTGCAct	Created Created Created Created Created Created Created Created Created Created Created	N N N N N N N N N N N	-0.171 -0.18 -0.132 -0.132 -0.208 -0.208 -0.208 -0.217 -0.189 -0.154 -0.154
140232874	rs150012822	T	T	hsa-miR-3121-3p hsa-miR-3163	19 21	aaTCTATTTtata aatctATTTTATA	Disrupted Disrupted	N N	-0.105 0.02
140232874	rs150012822	T	C	hsa-miR-142-5p hsa-miR-340-5p hsa-miR-376a-2-5p hsa-miR-548a-5p hsa-miR-548ab hsa-miR-548ak hsa-miR-548am-5p hsa-miR-548ap-5p hsa-miR-548aq-5p hsa-miR-548ar-5p hsa-miR-548as-5p hsa-miR-548au-5p hsa-miR-548av-5p hsa-miR-548ay-5p hsa-miR-548b-5p hsa-miR-548c-5p hsa-miR-548d-5p hsa-miR-548h-5p hsa-miR-548i hsa-miR-548j-5p hsa-miR-548k hsa-miR-548l hsa-miR-548o-5p hsa-miR-548w hsa-miR-548y hsa-miR-559 hsa-miR-5590-3p hsa-miR-8054	21 21 16 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 19 21 19	aatctACTTTATA aatctaCTTTATA AATCTACtttata aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatcTACTTTAta aatctACTTTATA aatcTACTTTAta	Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created Created	N N N N N N N N N N N N N N N N N N N N N N N N N N N N	-0.135 -0.057 -0.155 -0.027 -0.024 -0.021 -0.027 -0.027 -0.034 -0.027 -0.027 -0.027 -0.038 -0.024 -0.024 -0.027 -0.024 -0.017 -0.027 -0.027 -0.038 -0.03 -0.027 -0.021 -0.024 -0.027 -0.125 -0.035

**Genome Browser**
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