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_024674
Gene Symbol:	LIN28A
Description:	Homo sapiens lin-28 homolog A (C. elegans) (LIN28A), mRNA.
Gene Location:	chr1(+):26737268-26756219
Browse Associations

Somatic mutations that impact miRNA target sites

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26426734G>A			0_42				Melanoma
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-2110	ccaTCCCCAAaatttccag	6	UUGGGGAA	m7a	(m6a->m7a)	no TS	-0.144	-0.06
hsa-miR-3150a-3p	ccaTCCCCAGaatttccag	6	CUGGGGAG	m7a	(m7a->m6a)	no TS	-0.145	-0.04
hsa-miR-4260	ccatCCCCAAaatttccag	11	CUUGGGGC	m6b	Created	-0.036	-0.198	-4.75
hsa-miR-4314	ccatcCCCAGAatttccag	10	CUCUGGGA	m6b	Disrupted	-0.151	no TS	-0.02
hsa-miR-450a-3p	ccaTCCCCAAaatttccag	6	AUUGGGGA	m7b	(m6b->m7b)	-0.023	-0.371	No effect
hsa-miR-4667-5p	ccaTCCCCAGaatttccag	6	ACUGGGGA	m7b	(m7b->m6b)	-0.395	no TS	0.03
hsa-miR-4700-5p	ccaTCCCCAGAatttccag	6	UCUGGGGA	m8a	Disrupted	-0.416	no TS	-0.95
hsa-miR-5572	ccatCCCCAAaatttccag	11	GUUGGGGU	m6b	Created	-0.029	-0.174	No effect
hsa-miR-637	ccatCCCCAGaatttccag	11	ACUGGGGG	m6b	Disrupted	-0.162	no TS	0.12

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26427291C>T			COSN7989703		PCSI_0224_Pa_P_526		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-191-3p	ccaggtctGCGCAGCagga	0	GCUGCGCU	m7a	Disrupted	NA	NA	0.020000
hsa-miR-3130-3p	ccaggtctGTGCAGCagga	0	GCUGCACC	m7a	Created	NA	NA	-2.930000

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26427382A>C			COSN8455336		AOCS-120-3-6		[ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-29a-5p	tttgccAATCAGagctggc	0	ACUGAUUU	m6b	Created	no TS	0.064000	-5.540000
hsa-miR-3920	tttgccAATCAGagctggc	0	ACUGAUUA	m6b	Created	no TS	0.049000	-1.170000

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26427530T>C			COSN4749894		tumor_4177434		[haematopoietic_and_lymphoid_tissue][NS][lymphoid_neoplasm][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1227	aaatgGTGGCACacagagg	1	CGUGCCAC	m7b	Created	-0.039000	-0.250000	-0.140000
hsa-miR-4715-3p	aaatGGTGGCACacagagg	0	GUGCCACC	m8a	Created	no TS	-0.148000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26427752G>A			ICGC_529356		TCGA-A6-2672-01A-01W-0833-10		ColonAdenocarcinoma(TCGA,US)
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3159	tactTAATCCTgtgctgtc	2	UAGGAUUA	m7b	Disrupted	-0.106	-0.144	No effect
hsa-miR-5589-3p	tacttaatCATGTGCtgtc	0	UGCACAUG	m7b	Created	-0.023	-0.086	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26427779C>T			ICGC_461244		TCGA-CM-5861-01A-01D-1650-10		ColonAdenocarcinoma(TCGA,US)
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3682-5p	gatatatGAAGTAaggtga	2	CUACUUCU	m6b	Disrupted	0.055	no TS	0.69
hsa-miR-499a-3p	gatataTGATGTaaggtga	0	AACAUCAC	m6b	Created	0.013	0.049	-0.03
hsa-miR-499b-3p	gatataTGATGTaaggtga	0	AACAUCAC	m6b	Created	0.013	0.049	-0.3

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26427835C>T			COSN6525149		ICGC_MB68		[central_nervous_system][brain][primitive_neuroectodermal_tumour-medulloblastoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3614-5p	acacaCAAGTGagggtttt	0	CCACUUGG	m6b	Created	-0.026000	0.063000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26427994G>A			COSN6032755		RK119_C01		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-124-5p	caataGAACACattgggtg	0	CGUGUUCA	m6b	Created	no TS	0.034000	-0.060000
hsa-miR-4273	caatAGAACACattgggtg	0	GUGUUCUC	m7a	Created	NA	NA	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26428174T>C			ICGC_448162		TCGA-CA-6718-01A-11D-1835-10		ColonAdenocarcinoma(TCGA,US)
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
chr1:g.26428560T>A			9_10669		CRC-3-Tumor		Colorectal adenocarcinoma
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
chr1:g.26428927A>G			ICGC_6B0CD5CC-2A78-11E2-96E7-04FD496BB9B8		CPCG_0102_Pr_P_P1		ProstateCancer(OICR,CA)
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-150-5p	gcactTTGGGAGgctgagg	0	UCUCCCAA	m7b	Created	-0.047	-0.052	-0.77
hsa-miR-186-3p	gcaCTTTGGGaggctgagg	0	GCCCAAAG	m7b	(m6b->m7b)	-0.011	-0.057	-0.36
hsa-miR-3614-3p	gcactttgGAAGGCTgagg	0	UAGCCUUC	m7b	Disrupted	-0.053	no TS	0.06
hsa-miR-4297	gcactttGGAAGGCtgagg	0	UGCCUUCC	m7b	Disrupted	-0.145	no TS	3.17
hsa-miR-5581-5p	gcactttGGAAGGCTgagg	0	AGCCUUCC	m8a	Disrupted	-0.117	no TS	3.17

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26429092A>G			ICGC_ED7FD8EC-2A78-11E2-88F0-2CFD496BB9B8		CPCG_0183_Pr_P_P1		ProstateCancer(OICR,CA)
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1247-3p	ttgaaCCCGGGaggcagag	0	CCCCGGGA	m6b	Created	no TS	-0.159	-0.01
hsa-miR-2682-3p	ttgaacccgAGAGGCagag	0	CGCCUCUU	m6b	Disrupted	-0.055	no TS	0.06
hsa-miR-3183	ttgaacccGAGAGGCagag	0	GCCUCUCU	m7a	Disrupted	NA	NA	0.16
hsa-miR-3615	ttgaacCCGAGAGgcagag	0	UCUCUCGG	m7b	Disrupted	-0.149	no TS	0.73
hsa-miR-4532	ttgaaCCCGGGaggcagag	0	CCCCGGGG	m6b	Created	no TS	-0.157	-0.03

Mutation			Mutation ID		Sample Name		Cancer Type
chr1:g.26429592A>G			ICGC_410484		TCGA-AA-3950-01A-02W-0995-10		ColonAdenocarcinoma(TCGA,US)
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
chr1:g.26429718G>T			COSN6451782		CHC322T		[liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1911-5p	tattGGTACTCAaactgtc	0	UGAGUACC	m8a	Created	no TS	-0.614000	-9.620000
hsa-miR-624-5p	tatTGGTACTcaaactgtc	0	UAGUACCA	m7b	(m6b->m7b)	no TS	-0.327000	-2.030000

*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
26427474	rs190226490	T	T	hsa-miR-3675-5p	8	GCCCCATgacttg	Disrupted	N	-0.102
			A	hsa-miR-1227-5p hsa-miR-1264 hsa-miR-4260 hsa-miR-635 hsa-miR-6774-5p	8 7 8 8 8	GCCCCAAgacttg gccccAAGACTTg GCCCCAAgacttg gcCCCAAGActtg gcCCCAAGActtg	Created Created Created Created Created	N N N N N	-0.12 0.081 -0.095 -0.023 -0.019
26427608	rs150882758	T	T	hsa-miR-3159 hsa-miR-5590-5p	4 7	TAATCCTAtggca taatccTATGGCA	Disrupted Disrupted	N N	0.048 -0.021
			C	hsa-miR-4659a-5p hsa-miR-4659b-5p hsa-miR-5089-5p	7 7 4	taatccCATGGCA taatccCATGGCA tAATCCCAtggca	Created Created Created	N N N	-0.021 -0.021 0.028
26428153	rs35198558	-	-	hsa-miR-186-3p	2	ttCTTTGGGggtt	Unknown	N	-0.015
			G
26428389	rs200686814	-	-	hsa-miR-1275 hsa-miR-4260 hsa-miR-450a-2-3p hsa-miR-4665-5p hsa-miR-5572 hsa-miR-6751-5p hsa-miR-6752-5p hsa-miR-6803-5p hsa-miR-6835-5p hsa-miR-6842-5p hsa-miR-7110-5p	3 4 4 3 4 3 1 3 3 1 1	caCCCCCAAaaga cacCCCCAAAaga cacCCCCAAAaga caCCCCCAAaaga cacCCCCAAAaga cACCCCCAAaaga CACCCCCAaaaga cACCCCCAAaaga cACCCCCAaaaga CACCCCCAaaaga CACCCCCAaaaga	Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N N N N N N	0.009 -0.012 -0.008 0.012 -0.012 -0.047 -0.099 -0.041 -0.111 -0.099 -0.101
			C	hsa-miR-328-5p hsa-miR-6795-5p hsa-miR-6885-5p hsa-miR-6887-5p hsa-miR-7109-5p	3 3 3 3 3	caCCCCCCAaaaga caCCCCCCAaaaga caCCCCCCAaaaga caCCCCCCAaaaga caCCCCCCAAaaga	Unknown Unknown Unknown Unknown Unknown	N N N N N	-0.131 -0.141 -0.134 -0.141 -0.173
26428390	rs182292539	A	A	hsa-miR-1275 hsa-miR-4260 hsa-miR-450a-2-3p hsa-miR-4665-5p hsa-miR-5572 hsa-miR-6751-5p hsa-miR-6752-5p hsa-miR-6803-5p hsa-miR-6835-5p hsa-miR-6842-5p hsa-miR-7110-5p	3 4 4 3 4 3 3 3 3 3 3	aCCCCCAAaagaa acCCCCAAAagaa acCCCCAAAagaa aCCCCCAAaagaa acCCCCAAAagaa ACCCCCAAaagaa ACCCCCAaaagaa ACCCCCAAaagaa ACCCCCAaaagaa ACCCCCAaaagaa ACCCCCAaaagaa	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N N N N N N	0.004 -0.02 -0.016 0.007 -0.02 -0.052 -0.104 -0.046 -0.111 -0.104 -0.106
			C	hsa-miR-328-5p hsa-miR-6795-5p hsa-miR-6844 hsa-miR-6885-5p hsa-miR-6887-5p hsa-miR-7109-5p hsa-miR-9-5p	3 3 3 3 3 3 20	aCCCCCCAaagaa aCCCCCCAaagaa acccccCAAAGAA aCCCCCCAaagaa aCCCCCCAaagaa aCCCCCCAAagaa accccCCAAAGAa	Created Created Created Created Created Created Created	N N N N N N N	-0.128 -0.138 0.105 -0.131 -0.138 -0.165 0.06
26429718	rs6697410	T
			T	hsa-miR-1911-5p hsa-miR-624-5p hsa-miR-6869-5p hsa-miR-8081	0	tGGTACTCAaact TGGTACTcaaact tggTACTCAAact tggtACTCAAAct	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.614 -0.327 -0.127 -0.103

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