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_001130916
Gene Symbol:	TGFBR1
Description:	Homo sapiens transforming growth factor, beta receptor 1 (TGFBR1), transcript variant 2, mRNA.
Gene Location:	chr9(+):101867411-101916473
Browse Associations
Browse Pathways

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.99149565A>G			COSN6372187		RK308_C01		[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
chr9:g.99149734C>T			COSN8113770		8044436		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-1244	attctgAACTACTagagtt	0	AAGUAGUU	m7b	Created	no TS	-0.187000	-0.020000
hsa-miR-140-5p	attctgAACCACTagagtt	13	CAGUGGUU	m7b	Disrupted	-0.256000	no TS	0.050000
hsa-miR-325	attctgaaCTACTAGagtt	0	CCUAGUAG	m7b	Created	no TS	-0.315000	-0.110000
hsa-miR-4460	attctgaACCACTAgagtt	13	AUAGUGGU	m7b	Disrupted	-0.315000	-0.112000	0.100000
hsa-miR-5000-5p	attCTGAACTactagagtt	11	CAGUUCAG	m7b	(m6b->m7b)	-0.114000	-0.378000	-1.250000

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.99150657T>A			COSN8579763		tumor_4135099		[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-141-3p	ttCAGTGTTAccttatgtg	8	UAACACUG	m8a	(m7a->m8a)	0.056000	0.066000	No effect
hsa-miR-200a-3p	ttCAGTGTTAccttatgtg	8	UAACACUG	m8a	(m7a->m8a)	0.065000	0.077000	No effect
hsa-miR-4261	ttcagTGTTTCCTtatgtg	2	AGGAAACA	m8a	Disrupted	0.019000	-0.018000	0.010000
hsa-miR-4496	ttcagtGTTTCCTtatgtg	9	GAGGAAAC	m7b	Disrupted	-0.123000	-0.116000	0.060000
hsa-miR-548ag	ttcagtgTTACCTTatgtg	0	AAAGGUAA	m7b	Created	0.067000	0.154000	-0.220000
hsa-miR-548ai	ttcagtgTTACCTTatgtg	0	AAAGGUAA	m7b	Created	0.058000	0.145000	-0.600000
hsa-miR-570-5p	ttcagtgTTACCTTatgtg	0	AAAGGUAA	m7b	Created	0.058000	0.145000	-0.600000

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.99150734A>C			COSN5117154		HX32T		[liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-150-5p	acTTGGGAGAggtggtagc	10	UCUCCCAA	m8a	(m8a->m7a)	-0.168000	-0.151000	0.220000
hsa-miR-4713-5p	actTGGGAGAggtggtagc	2	UUCUCCCA	m7b	(m7b->m6b)	-0.067000	-0.037000	No effect

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.99151396T>G			COSN14598862		8058344		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-miR-3613-3p	ttttTTTTTTGTttttttt	0	ACAAAAAA	m8a	Disrupted	0.680000	0.704000	2.080000
hsa-miR-548aa	ttttttttTGGTTTTTttt	0	AAAAACCA	m8a	Created	0.275000	0.279000	0.820000
hsa-miR-548ac	tttttttttGGTTTTTttt	7	CAAAAACC	m7b	(m6c->m7b)	0.672000	0.728000	0.150000
hsa-miR-548ap-3p	ttttttttTGGTTTTTttt	0	AAAAACCA	m8a	Created	0.275000	0.279000	0.540000
hsa-miR-548d-3p	tttttttttGGTTTTTttt	7	CAAAAACC	m7b	(m6c->m7b)	0.709000	0.793000	0.040000
hsa-miR-548h-3p	tttttttttGGTTTTTttt	7	CAAAAACC	m7b	(m6c->m7b)	0.681000	0.728000	0.080000
hsa-miR-548t-3p	ttttttttTGGTTTTTttt	0	AAAAACCA	m8a	Created	0.275000	0.279000	0.820000
hsa-miR-548z	tttttttttGGTTTTTttt	7	CAAAAACC	m7b	(m6c->m7b)	0.681000	0.728000	0.080000

Mutation			Mutation ID		Sample Name		Cancer Type
chr9:g.99153419C>T			COSN8113771		8016470		[pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID	miRSite	Conservation	miRSeed	SeedClass	FuncClass	Wildtype CS+	Mutant CS+	PITA score change
hsa-let-7a-2-3p	agataTGTACAGaaaatgt	0	CUGUACAG	m7a	Disrupted	NA	NA	No effect
hsa-let-7a-3p	agataTGTATAGaaaatgt	15	CUAUACAA	m7a	Created	-0.167000	-0.167000	-0.060000
hsa-let-7b-3p	agataTGTATAGaaaatgt	15	CUAUACAA	m7a	Created	-0.177000	-0.177000	No effect
hsa-let-7f-1-3p	agataTGTATAGaaaatgt	15	CUAUACAA	m7a	Created	-0.205000	-0.205000	-0.410000
hsa-let-7f-2-3p	agataTGTATAGaaaatgt	0	CUAUACAG	m7a	Created	NA	NA	No effect
hsa-let-7g-3p	agataTGTACAGaaaatgt	0	CUGUACAG	m7a	Disrupted	NA	NA	0.210000
hsa-miR-1284	agataTGTATAGAaaatgt	0	UCUAUACA	m8a	Created	no TS	-0.195000	-0.230000
hsa-miR-3686	agatatgTACAGAaaatgt	12	AUCUGUAA	m6b	Disrupted	-0.046000	0.007000	0.320000
hsa-miR-4482-3p	agatatgtATAGAAAatgt	5	UUUCUAUU	m7a	Created	0.008000	0.045000	-0.060000
hsa-miR-4652-3p	agatatgtACAGAAaatgt	12	GUUCUGUU	m6b	Disrupted	-0.072000	-0.059000	No effect
hsa-miR-493-5p	agatATGTACAgaaaatgt	9	UUGUACAU	m7b	Disrupted	-0.100000	no TS	0.230000

**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
99149680	rs201903995	-
99149680	rs201903995	-	C	hsa-miR-1244	1	gtcttACTACTAa	Unknown	N	-0.116
99149734	rs201260283	C	C	hsa-miR-140-5p hsa-miR-203b-5p hsa-miR-4460 hsa-miR-6080 hsa-miR-6718-5p	13 13 13 13 13	ctgAACCACTAga ctgaACCACTAga ctgaACCACTAga ctgaacCACTAGA ctgaACCACTAga	Disrupted Disrupted Disrupted Disrupted Disrupted	LT N N N N	-0.256 -0.115 -0.203 -0.124 -0.115
99149734	rs201260283	C	G	hsa-miR-554	13	ctgaacGACTAGA	Created	N	-0.138
99149746	rs202012098	C	C	hsa-miR-4496 hsa-miR-561-5p hsa-miR-651-3p hsa-miR-6830-5p	9 8 9 7	aGTTTCCTtgatt agttTCCTTGAtt agTTTCCTTgatt agtTTCCTTGAtt	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.116 -0.176 -0.005 -0.235
99149746	rs202012098	C
99149879	rs201687617	-	G	hsa-let-7a-3p hsa-let-7b-3p hsa-let-7f-1-3p hsa-miR-300 hsa-miR-381-3p hsa-miR-4666a-3p hsa-miR-98-3p	15 15 15 15 15 15 15	tattTTGTATAct tattTTGTATAct tattTTGTATAct tattTTGTATAct tattTTGTATAct tattTTGTATAct tattTTGTATAct	Unknown Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N N	-0.083 -0.093 -0.121 No Change -0.003 0.014 -0.093
99149879	rs201687617	-	A	hsa-miR-3163 hsa-miR-410-3p	15 15	tATTTTATAtact tattTTATATAct	Unknown Unknown	N N	0.04 0.044
99150154	rs201615730	C	C	hsa-miR-3591-5p hsa-miR-3677-5p hsa-miR-4460 hsa-miR-4727-3p	18 2 12 12	ttaagcCACTAAA ttaaGCCACTAaa ttaagCCACTAAa ttaagCCACTAAa	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.01 -0.139 -0.112 -0.109
99150154	rs201615730	C	T	hsa-miR-21-5p hsa-miR-5579-3p hsa-miR-590-5p	2 2 2	tTAAGCTActaaa tTAAGCTActaaa tTAAGCTActaaa	Created Created Created	N N N	-0.022 -0.065 -0.022
99150683	rs200278937	-	G	hsa-miR-6792-5p	10	gcaaCTGCTTAca	Unknown	N	-0.024
99150683	rs200278937	-	A	hsa-miR-1244 hsa-miR-4703-3p hsa-miR-562	1 7 10	gcAACTACTtaca gCAACTACttaca gcaaCTACTTAca	Unknown Unknown Unknown	N N N	-0.01 -0.053 0.053
99150733	rs11568811	-	G	hsa-miR-150-5p hsa-miR-2116-3p hsa-miR-4713-5p hsa-miR-532-3p hsa-miR-6800-3p	6 6 6 6 6	TTGGGAGAggtgg tTGGGAGAggtgg tTGGGAGAggtgg tTGGGAGAggtgg ttggGAGAGGTgg	Unknown Unknown Unknown Unknown Unknown	N N N N N	0.057 -0.001 -0.03 -0.003 0.021
99150733	rs11568811	-	C	hsa-miR-4433-5p hsa-miR-4433b-5p hsa-miR-6748-3p	6 6 5	tTGGGACAggtgg tTGGGACAggtgg ttgGGACAGGtgg	Unknown Unknown Unknown	N N N	-0.017 -0.034 -0.019
99150945	rs201604963	A	G	hsa-miR-4713-5p hsa-miR-629-3p hsa-miR-6867-3p	2 2 2	agGGGAGAAaaaa agGGGAGAAAaaa agGGGAGAAaaaa	Created Created Created	N N N	-0.037 -0.035 -0.027
99150945	rs201604963	A	A	hsa-miR-3679-3p hsa-miR-4446-5p hsa-miR-6826-3p	2 2 2	aGGGGAAAaaaaa agGGGAAAAaaaa AGGGGAAaaaaaa	Disrupted Disrupted Disrupted	N N N	-0.034 0.037 -0.066
99151246	rs199811787	-	A	hsa-miR-3674	6	gaCTACAAAgttg	Unknown	N	0.061
99151246	rs199811787	-	T	hsa-miR-1244	8	gACTACTAagttg	Unknown	N	-0.006
99151386	rs200898127	G	G	hsa-miR-548ac hsa-miR-548as-3p hsa-miR-548d-3p hsa-miR-548h-3p hsa-miR-548z hsa-miR-6771-3p	1 1 1 1 1 1	gtgggGGTTTTTt gtggGGGTTTTtt gtgggGGTTTTTt gtgggGGTTTTTt gtgggGGTTTTTt gtgGGGGTTTttt	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N	0.016 0.021 0.025 0.016 0.016 0.054
99151386	rs200898127	G
99151387	rs112113922	G	T	hsa-miR-548ac hsa-miR-548as-3p hsa-miR-548d-3p hsa-miR-548h-3p hsa-miR-548z hsa-miR-6771-3p	1 1 1 1 1 1	tgggGGTTTTTtt tggGGGTTTTttt tgggGGTTTTTtt tgggGGTTTTTtt tgggGGTTTTTtt tgGGGGTTTtttt	Created Created Created Created Created Created	N N N N N N	-0.022 -0.025 -0.013 -0.004 -0.004 -0.021
99151387	rs112113922	G
99151395	rs201152885	T	T	hsa-miR-3613-3p	1	ttTTTTTTGtttt	Disrupted	N	-0.054
99151395	rs201152885	T
99151397	rs199545273	T	G	hsa-miR-3613-3p	1	TTTTTTGtttttt	Created	N	0.103
99151397	rs199545273	T
99151398	rs202187266	G
99151398	rs202187266	G	G	hsa-miR-548aa hsa-miR-548ac hsa-miR-548ap-3p hsa-miR-548d-3p hsa-miR-548h-3p hsa-miR-548t-3p hsa-miR-548z	0	ttttTGGTTTTtt tttttGGTTTTTt ttttTGGTTTTtt tttttGGTTTTTt tttttGGTTTTTt ttttTGGTTTTtt tttttGGTTTTTt	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N N	0.014 0.051 0.014 0.079 0.051 0.014 0.051
99151404	rs199659996	T
99151404	rs199659996	T	G	hsa-miR-3613-3p	0	TTTTTTGtttttt	Created	N	0.212
99151408	rs36064078	-	-	hsa-miR-3065-5p hsa-miR-3613-3p	0	ttttttTTTGTTG tttTTTTTTGttg	Unknown Unknown	N N	0.009 -0.007
99151408	rs36064078	-	G	hsa-miR-3529-3p	0	tttttTTGTTGTtg	Unknown	N	0.08
99151408	rs7871490	-	T	hsa-miR-3065-5p hsa-miR-3613-3p	0	ttttttTTTGTTG tttTTTTTTGttg	Unknown Unknown	N N	0.017 -0.015
99151408	rs7871490	-	G	hsa-miR-3529-3p	0	ttttTTGTTGTtg	Unknown	N	0.075
99151409	rs67536454	-	-	hsa-miR-3065-5p hsa-miR-3529-3p hsa-miR-3613-3p	0	tttttTTTGTTGt ttttttTTGTTGT ttTTTTTTGttgt	Unknown Unknown Unknown	N N N	0.064 0.033 -0.018
99151409	rs67536454	-	G
99151411	rs201054018	-	G	hsa-miR-3065-5p hsa-miR-3529-3p hsa-miR-3613-3p	0	tttTTTGTTGttg ttttTTGTTGTtg TTTTTTGttgttg	Unknown Unknown Unknown	N N N	0.008 0.085 0.006
99151411	rs201054018	-
99151417	rs60885995	T	G	hsa-miR-3529-3p	0	gTTGTTGTttttg	Created	N	0.098
99151417	rs60885995	T	T	hsa-miR-3613-3p	1	gttgttTTTTTTG	Disrupted	N	0.179
99152000	rs199959704	G	G	hsa-miR-361-3p hsa-miR-3679-3p	3 3	gaTGGGGGAaata gatGGGGGAAAta	Disrupted Disrupted	N N	-0.04 -0.1
99152000	rs199959704	G	A	hsa-miR-150-5p hsa-miR-2116-3p hsa-miR-4713-5p hsa-miR-532-3p hsa-miR-629-3p hsa-miR-6867-3p	3 2 3 3 3 3	gaTGGGAGAaata gATGGGAGAaata gaTGGGAGAAata gaTGGGAGAaata gatGGGAGAAAta gatGGGAGAAata	Created Created Created Created Created Created	N N N N N N	0.026 0.032 -0.041 0.01 0.018 -0.01
99152540	rs201191549	-	C	hsa-miR-548ag hsa-miR-548ai hsa-miR-548ba hsa-miR-548m hsa-miR-570-5p	1 1 1 1 1	gagTTACCTTttt gagTTACCTTttt gagTTACCTTttt gagtTACCTTTtt gagTTACCTTttt	Unknown Unknown Unknown Unknown Unknown	N N N N N	0.067 0.058 0.058 0.035 0.058
99152540	rs201191549	-
99152542	rs151310060	C	T	hsa-miR-548ag hsa-miR-548ai hsa-miR-548ba hsa-miR-548m hsa-miR-570-5p	1 1 1 1 1	gTTACCTTttttc gTTACCTTttttc gTTACCTTttttc gtTACCTTTtttc gTTACCTTttttc	Created Created Created Created Created	N N N N N	0.067 0.058 0.058 0.035 0.058
99152542	rs151310060	C
99152611	rs202218587	A
99152611	rs202218587	A	G	hsa-miR-1267 hsa-miR-367-5p hsa-miR-4652-3p hsa-miR-4778-5p	3 3 5 7	aCAACAGAatcac aCAACAGAatcac acAACAGAAtcac acaACAGAATcac	Created Created Created Created	N N N N	0.045 0.055 0.137 0.104
99152666	rs200676329	G	A	hsa-miR-145-5p hsa-miR-1825 hsa-miR-199a-5p hsa-miR-199b-5p hsa-miR-5195-3p hsa-miR-6875-3p	2 2 2 2 2 7	cACTGGAAgaatc CACTGGAagaatc CACTGGAagaatc CACTGGAagaatc cACTGGAAgaatc cactGGAAGAAtc	Created Created Created Created Created Created	N N N N N N	0.015 -0.058 -0.031 -0.031 0.012 0.064
99152666	rs200676329	G	G	hsa-miR-150-5p hsa-miR-2116-3p hsa-miR-4713-5p hsa-miR-532-3p hsa-miR-629-3p hsa-miR-6867-3p	6 6 6 6 7 7	cacTGGGAGAatc cacTGGGAGAatc cacTGGGAGAAtc cacTGGGAGAatc cactGGGAGAAtc cactGGGAGAAtc	Disrupted Disrupted Disrupted Disrupted Disrupted Disrupted	N N N N N N	-0.006 -0.045 -0.019 -0.026 -0.028 No Change
99152704	rs201706420	G	T	hsa-miR-141-3p hsa-miR-200a-3p hsa-miR-589-3p	8 8 9	gCAGTGTTctggc gCAGTGTTctggc gcagTGTTCTGgc	Created Created Created	N N N	0.097 0.097 0.1
99152704	rs201706420	G	G	hsa-miR-1273g-3p	8	GCAGTGGtctggc	Disrupted	N	0.006
99153018	rs200775937	-	G	hsa-miR-548ac hsa-miR-548ae hsa-miR-548ah-3p hsa-miR-548aj-3p hsa-miR-548am-3p hsa-miR-548aq-3p hsa-miR-548d-3p hsa-miR-548h-3p hsa-miR-548j-3p hsa-miR-548x-3p hsa-miR-548z hsa-miR-7-1-3p hsa-miR-7-2-3p	16 16 16 16 16 16 16 16 16 16 16 12 12	gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaatttGTTTTTA gaATTTGTTttta gaATTTGTTttta	Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N N N N N N N N	0.094 0.097 0.101 0.097 0.101 0.097 0.098 0.094 0.097 0.097 0.094 0.038 0.047
99153018	rs200775937	-	A	hsa-miR-10a-3p hsa-miR-548c-3p	10 16	GAATTTAttttta gaatttATTTTTA	Unknown Unknown	N N	0.06 0.156
99153415	rs201831473	A	T	hsa-miR-493-5p hsa-miR-5580-3p	9 9	aagatATGTACAg aagATATGTAcag	Created Created	N N	-0.1 0.025
99153415	rs201831473	A
99153420	rs200013714	-	A	hsa-miR-3686 hsa-miR-4652-3p hsa-miR-4743-3p hsa-miR-493-5p	12 12 12 9	atgTACAGAAaat atgtACAGAAAat atgtACAGAAAat ATGTACAgaaaat	Unknown Unknown Unknown Unknown	N N N N	-0.053 -0.013 -0.014 -0.1
99153420	rs200013714	-	G	hsa-miR-3678-5p	12	aTGTACGGAaaat	Unknown	N	-0.486
99153512	rs202104135	G	T	hsa-miR-548ae hsa-miR-548ah-3p hsa-miR-548aj-3p hsa-miR-548am-3p hsa-miR-548aq-3p hsa-miR-548j-3p hsa-miR-548x-3p hsa-miR-5582-3p	11 11 11 11 11 11 11 10	cataAGTTTTTtt cataAGTTTTTtt cataAGTTTTTtt cataAGTTTTTtt cataAGTTTTTtt cataAGTTTTTtt cataAGTTTTTtt catAAGTTTTttt	Created Created Created Created Created Created Created Created	N N N N N N N N	-0.02 -0.02 -0.02 -0.02 -0.02 -0.011 -0.02 -0.02
99153512	rs202104135	G	G	hsa-miR-548ac hsa-miR-548d-3p hsa-miR-548h-3p hsa-miR-548z	8 8 8 8	cataaGGTTTTTt cataaGGTTTTTt cataaGGTTTTTt cataaGGTTTTTt	Disrupted Disrupted Disrupted Disrupted	N N N N	-0.073 -0.055 -0.073 -0.073
99153525	rs200270666	-	T	hsa-let-7a-3p hsa-let-7b-3p hsa-let-7f-1-3p hsa-miR-300 hsa-miR-381-3p hsa-miR-4666a-3p hsa-miR-7849-3p hsa-miR-98-3p	11 11 11 11 11 9 9 13	aaaTTGTATAttg aaaTTGTATAttg aaaTTGTATAttg aaaTTGTATAttg aaaTTGTATAttg aaATTGTATAttg aAATTGTAtattg aaaTTGTATAttg	Unknown Unknown Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N N N	-0.084 -0.084 -0.084 -0.014 -0.008 -0.111 -0.021 -0.103
99153525	rs200270666	-
99153762	rs200302744	-	T	hsa-miR-5582-3p	1	AAGTTTTctaacc	Unknown	N	0.037
99153762	rs200302744	-	C	hsa-miR-1258 hsa-miR-4496	1 1	aagttTCCTAACc aaGTTTCCTAacc	Unknown Unknown	N N	-0.158 -0.198
99154098	rs77001090	-	A	hsa-miR-4668-3p hsa-miR-548c-3p hsa-miR-605-5p	2 3 2	ttagGGATTTTtt ttaggGATTTTTt ttaGGGATTTttt	Unknown Unknown Unknown	N N N	-0.109 -0.004 -0.299
99154098	rs77001090	-	T	hsa-miR-548ac hsa-miR-548as-3p hsa-miR-548d-3p hsa-miR-548h-3p hsa-miR-548z hsa-miR-652-5p	2 2 2 2 2 2	ttagGGTTTTTtt ttaGGGTTTTttt ttagGGTTTTTtt ttagGGTTTTTtt ttagGGTTTTTtt tTAGGGTTttttt	Unknown Unknown Unknown Unknown Unknown Unknown	N N N N N N	-0.113 -0.235 -0.103 -0.103 -0.103 -0.296

**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