SomamiR DB 2.0
Somatic mutations altering microRNA-ceRNA interactions
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PolymiRTS Database
Prediction criteria: TargetScan sites only     All 6mer or longer seed matches
RefSeq ID: NM_000254
Gene Symbol: MTR
Description: Homo sapiens 5-methyltetrahydrofolate-homocysteine methyltransferase (MTR), mRNA.
Gene Location: chr1(+):236958580-237067281
Browse Associations
Browse Pathways

Somatic mutations that impact miRNA target sites


Mutation Mutation ID Sample Name Cancer Type
chr1:g.236898297C>A COSN8449612 AOCS-148-1-4 [ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-149-3p cattttcgtCCTCCCataa
 2
 AGGGAGGG m6b Disrupted -0.225000 -0.119000 No effect
hsa-miR-30b-3p cattttcgtCCTCCCAtaa
 2
 CUGGGAGG m7b (m7b->m6c) -0.328000 -0.141000 No effect
hsa-miR-3689a-3p cattttcgtCCTCCCAtaa
 2
 CUGGGAGG m7b (m7b->m6c) -0.291000 -0.104000 No effect
hsa-miR-3689b-3p cattttcgtCCTCCCAtaa
 2
 CUGGGAGG m7b (m7b->m6c) -0.309000 -0.122000 No effect
hsa-miR-3689c cattttcgtCCTCCCAtaa
 2
 CUGGGAGG m7b (m7b->m6c) -0.309000 -0.122000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236898524A>C ICGC_9532B7EA-2A78-11E2-8335-12FD496BB9B8 CPCG_0102_Pr_P_P2 ProstateCancer(OICR,CA)
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3664-5p tcagcctcCAGAGTagctg
 0 AACUCUGU m6b Disrupted -0.156 -0.172 0.01
hsa-miR-4443 tcaGCCTCCAgagtagctg
 1
 UUGGAGGC m7b (m7b->m6b) -0.088 no TS No effect
hsa-miR-4714-5p tcagcctcCAGAGTagctg
 0 AACUCUGA m6b Disrupted 0.005 no TS 0.63
hsa-miR-514a-5p tcagcctCCAGAGTAgctg
 1
 UACUCUGG m8a Disrupted -0.13 no TS 3.28
hsa-miR-516b-5p tcagcCTCCAGAgtagctg
 1
 AUCUGGAG m7b Disrupted 0.011 no TS 1.23
hsa-miR-518c-5p tcagccTCCAGAGtagctg
 1
 UCUCUGGA m7b Disrupted -0.166 -0.151 0.01

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236898663T>G COSN9062251 C0010T [kidney][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3929 ctgcccaccTCAGCCTCcc
 1
 GAGGCUGA m8a (m8a->m7b) 0.055000 0.018000 3.480000
hsa-miR-4419b ctgcccaccTCAGCCTCcc
 1
 GAGGCUGA m8a (m8a->m7b) 0.018000 0.009000 No effect
hsa-miR-4478 ctgcccaccTCAGCCTCcc
 1
 GAGGCUGA m8a (m8a->m7b) 0.018000 -0.019000 0.020000
hsa-miR-4746-3p ctgccCACCGCagcctccc
 0 AGCGGUGC m6b Created no TS -0.098000 No effect
hsa-miR-604 ctgcccacCGCAGCCTccc
 2
 AGGCUGCG m8a Created -0.144000 -0.235000 -3.210000

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236898676A>G ICGC_6DD03D76-2A78-11E2-96E7-04FD496BB9B8 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-338-3p cctcccaaaATGCTGGgat
 0 UCCAGCAU m7b (m7b->m6c) -0.055 no TS 0.06
hsa-miR-4310 cctcccaaAATGCTGggat
 0 GCAGCAUU m7b Disrupted 0.075 0.025 No effect

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236899040C>T COSN8449613 AOCS-166-1-2 [ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-141-5p ggatGAAGATGaagaagca
 0 CAUCUUCC m7a Created NA NA No effect
hsa-miR-452-3p ggatgaAGATGAagaagca
 0 CUCAUCUG m6b Created no TS 0.080000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236899414G>T 0_38 Lung cancer
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-181a-2-3p ggcaagTCAGTGGggacag
 11
 ACCACUGA m7b Disrupted -0.219 -0.277 0.08
hsa-miR-4286 ggcaagtcAGTGGGGacag
 12
 ACCCCACU m7b Disrupted -0.012 -0.008 0.01

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236899990G>A COSN6028072 RK308_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-4422 ggcaccacTGCTTTaaaaa
 2
 AAAAGCAU m6b Disrupted 0.268000 0.189000 0.060000
hsa-miR-4460 ggcACCACTActttaaaaa
 0 AUAGUGGU m7b (m6b->m7b) no TS -0.027000 No effect
hsa-miR-4519 ggcacCACTGCTttaaaaa
 2
 CAGCAGUG m7b Disrupted -0.129000 -0.110000 0.010000
hsa-miR-548a-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.187000 0.305000 No effect
hsa-miR-548ab ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.181000 0.303000 No effect
hsa-miR-548ak ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548am-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548ap-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.288000 No effect
hsa-miR-548aq-5p ggcaccacTACTTTaaaaa
 0 GAAAGUAA m6b Created 0.159000 0.267000 No effect
hsa-miR-548ar-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548as-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.187000 0.305000 No effect
hsa-miR-548au-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548av-5p ggcaccacTACTTTaaaaa
 4
 AAAAGUAC m6b Created -0.055000 0.056000 No effect
hsa-miR-548b-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.175000 0.290000 No effect
hsa-miR-548c-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548d-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.281000 No effect
hsa-miR-548h-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548i ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.181000 0.306000 No effect
hsa-miR-548j ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.288000 No effect
hsa-miR-548k ggcaccacTACTTTaaaaa
 4
 AAAAGUAC m6b Created -0.055000 0.056000 No effect
hsa-miR-548l ggcaccacTACTTTaaaaa
 0 AAAAGUAU m6b Created 0.233000 0.345000 No effect
hsa-miR-548o-5p ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548w ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.166000 0.284000 No effect
hsa-miR-548y ggcaccacTACTTTaaaaa
 0 AAAAGUAA m6b Created 0.159000 0.267000 No effect
hsa-miR-559 ggcaccacTACTTTAaaaa
 0 UAAAGUAA m7a Created 0.212000 0.334000 No effect
hsa-miR-562 ggcaccaCTACTTTaaaaa
 0 AAAGUAGC m7a Created 0.002000 0.002000 -0.570000
hsa-miR-9-3p ggcaccactGCTTTAaaaa
 1
 AUAAAGCU m6b Disrupted 0.130000 0.049000 0.010000

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236900625T>G COSN5202243 SS6003303 [oesophagus][NS][carcinoma][adenocarcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-199a-3p tgttCTACTGaaatatatt
 0 ACAGUAGU m6b Created no TS -0.041000 -0.080000
hsa-miR-199b-3p tgttCTACTGaaatatatt
 0 ACAGUAGU m6b Created no TS -0.041000 -0.080000
hsa-miR-205-3p tgttctaCTGAAATatatt
 4
 GAUUUCAG m7b Created 0.074000 0.159000 -2.460000
hsa-miR-222-5p tgttCTACTGAaatatatt
 0 CUCAGUAG m7b Created no TS -0.092000 No effect
hsa-miR-30a-3p tgttctACTGAAAtatatt
 0 CUUUCAGU m7b Created -0.026000 -0.043000 No effect
hsa-miR-30d-3p tgttctACTGAAAtatatt
 0 CUUUCAGU m7b Created -0.026000 -0.043000 No effect
hsa-miR-30e-3p tgttctACTGAAAtatatt
 0 CUUUCAGU m7b Created -0.017000 -0.043000 No effect
hsa-miR-3129-5p tgttCTACTGaaatatatt
 0 GCAGUAGU m6b Created no TS -0.037000 -0.560000
hsa-miR-562 tgttCTACTTaaatatatt
 0 AAAGUAGC m6b Disrupted 0.002000 no TS 0.010000
hsa-miR-936 tgtTCTACTGaaatatatt
 0 ACAGUAGA m7b (m6b->m7b) no TS -0.111000 No effect


Mutation Mutation ID Sample Name Cancer Type
chr1:g.236901202G>A COSN9062252 C0051T [kidney][NS][other][neoplasm]
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.236901614A>T COSN5368046 RK155_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3140-5p ttacagTTCAGGagtctgg
 1
 ACCUGAAU m6b Disrupted 0.045000 0.015000 0.270000
hsa-miR-3545-3p ttaCAGTTCAggagtctgg
 0 UUGAACUG m7b (m7b->m6b) -0.021000 0.003000 -1.180000
hsa-miR-4539 ttacAGTTCAGgagtctgg
 2
 GCUGAACU m7b Disrupted 0.051000 no TS 0.040000
hsa-miR-508-5p ttacagttCTGGAGTctgg
 2
 UACUCCAG m7b Created -0.041000 -0.061000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236901698C>T COSN7987529 ASHPC_0003_Pa_P_2 [pancreas][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-1253 ccagCTTCTCatgttctca
 2
 AGAGAAGA m6b Disrupted 0.198000 0.106000 No effect
hsa-miR-3653 ccagCTTCTTAtgttctca
 0 CUAAGAAG m7b Created no TS 0.179000 No effect
hsa-miR-4803 ccagcttcTTATGTTctca
 2
 UAACAUAA m7b Created 0.126000 0.325000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236902573A>C COSN8449614 AOCS-148-1-4 [ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3664-3p taaagccTCCTGAGggcag
 2
 UCUCAGGA m7b Created 0.048000 0.152000 -0.340000
hsa-miR-4433-3p taaagcCTCCTGagggcag
 0 ACAGGAGU m6b Created no TS 0.065000 No effect
hsa-miR-4459 taaagCCTCCTGagggcag
 2
 CCAGGAGG m7b Created -0.059000 -0.015000 No effect
hsa-miR-4695-5p taaaGCCTCCTGagggcag
 4
 CAGGAGGC m8a Created -0.007000 -0.021000 No effect
hsa-miR-4768-3p taaagcCTCCTGagggcag
 1
 CCAGGAGA m6b Created -0.017000 0.055000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236903176G>C COSN9062253 C0100T [kidney][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-1255b-2-3p aatttttAAGTGGTTacct
 4
 AACCACUU m8a Disrupted -0.323000 -0.184000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr1:g.236903869T>C COSN1436952 RK001_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-577 ttgTTTATCTtggattaaa
 2
 UAGAUAAA m7b (m7b->m6b) -0.085000 no TS 0.120000
hsa-miR-665 ttgtttaTCCTGGattaaa
 0 ACCAGGAG m6b Created -0.023000 -0.203000 No effect
hsa-miR-577 ttgTTTATCTtggattaaa
 2
 UAGAUAAA m7b (m7b->m6b) -0.085 no TS 0.02
hsa-miR-665 ttgtttaTCCTGGattaaa
 0 ACCAGGAG m6b Created -0.023 -0.203 No effect

*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
236897697 rs12058328 A
G hsa-miR-3929
hsa-miR-4419b
hsa-miR-4478
hsa-miR-4742-3p
hsa-miR-4999-5p
hsa-miR-645
1
1
1
3
2
1
 aataCAGCCTAgg
aataCAGCCTAgg
aataCAGCCTAgg
AATACAGcctagg
aATACAGCctagg
aatacAGCCTAGg
 Created
Created
Created
Created
Created
Created
N
N
N
N
N
N
 -0.153
-0.153
-0.166
-0.127
-0.225
-0.216
236898391 rs145714681 T
A hsa-miR-4803
hsa-miR-495-3p
hsa-miR-5688
hsa-miR-7-1-3p
hsa-miR-7-2-3p
1
1
1
1
1
 tttgTTATGTTtt
TTTGTTAtgtttt
TTTGTTAtgtttt
TTTGTTAtgtttt
TTTGTTAtgtttt
 Created
Created
Created
Created
Created
N
N
N
N
N
 -0.005
0.037
0.03
0.041
0.041
236899417 rs190914070 G G hsa-miR-181a-2-3p
hsa-miR-4286
5
4
 TCAGTGGggacag
tcAGTGGGGAcag
 Disrupted
Disrupted
N
N
 0.058
-0.004
A hsa-miR-1304-3p
hsa-miR-181b-3p
hsa-miR-3909
hsa-miR-4420
hsa-miR-6852-3p
5
5
4
5
4
 tCAGTGAGgacag
TCAGTGAggacag
tcagtGAGGACAg
TCAGTGAggacag
tcagtGAGGACAg
 Created
Created
Created
Created
Created
N
N
N
N
N
 0.05
0.104
0.016
0.094
0.019
236900531 rs141686413 C C hsa-miR-1911-3p
hsa-miR-4459
hsa-miR-665
hsa-miR-6753-5p
hsa-miR-766-5p
2
2
2
2
2
 ttcctCCTGGTAg
ttCCTCCTGgtag
ttcCTCCTGGtag
ttcctCCTGGTAg
TTCCTCCtggtag
 Disrupted
Disrupted
Disrupted
Disrupted
Disrupted
N
N
N
N
N
 0.013
-0.02
No Change
-0.001
0.047
236900966 rs76520920 C C hsa-miR-508-5p
2
 gaatgtCTGGAGT
 Disrupted
N
 -0.062
236901741 rs11803836 C C hsa-miR-4695-5p
1
 tgGCCTCCTctta
 Disrupted
N
 -0.027
T hsa-miR-4493
hsa-miR-4753-5p
hsa-miR-6770-5p
1
1
1
 tGGCCTTCtctta
TGGCCTTctctta
tggCCTTCTCtta
 Created
Created
Created
N
N
N
 -0.061
-0.002
0.046
236901917 rs74146662 C C hsa-miR-146a-5p
hsa-miR-146b-5p
hsa-miR-580-3p
hsa-miR-589-5p
hsa-miR-7153-5p
2
2
2
2
2
 gGTTCTCAagccc
gGTTCTCAagccc
ggTTCTCAAgccc
GGTTCTCAagccc
gGTTCTCAagccc
 Disrupted
Disrupted
Disrupted
Disrupted
Disrupted
N
N
N
N
N
 0.049
0.052
0.118
-0.045
0.035
T hsa-miR-27a-5p
hsa-miR-3653
hsa-miR-3658
hsa-miR-4511
hsa-miR-4720-3p
hsa-miR-548b-3p
2
2
2
2
2
2
 ggttctTAAGCCC
ggTTCTTAAgccc
ggTTCTTAAgccc
gGTTCTTAagccc
ggttCTTAAGCcc
GGTTCTTAagccc
 Created
Created
Created
Created
Created
Created
N
N
N
N
N
N
 -0.009
0.166
0.241
0.101
0.027
0.05
236902283 rs10925264 T G hsa-miR-378a-5p
0 acccaaGTCAGGA
 Created
N
 -0.046
T hsa-miR-219a-2-3p
hsa-miR-219b-3p
hsa-miR-3140-5p
hsa-miR-4680-3p
0 accCAATTCAgga
accCAATTCAgga
acccaATTCAGGA
acccAATTCAGga
 Disrupted
Disrupted
Disrupted
Disrupted
N
N
N
N
 0.123
0.123
0.109
0.201
236903179 rs16834541 G G hsa-miR-1255b-2-3p
hsa-miR-6776-3p
3
4
 tAAGTGGTtacct
taaGTGGTTAcct
 Disrupted
Disrupted
N
N
 -0.139
-0.06
A hsa-miR-34b-3p
4
 taAGTGATTAcct
 Created
N
 -0.094
236903731 rs1047052 A A hsa-miR-3622a-3p
hsa-miR-3622b-3p
hsa-miR-3667-3p
hsa-miR-670-3p
hsa-miR-6765-3p
2
2
2
2
2
 CAGGTGAggaagg
CAGGTGAggaagg
caggtgAGGAAGG
caggTGAGGAAgg
CAGGTGAggaagg
 Disrupted
Disrupted
Disrupted
Disrupted
Disrupted
N
N
N
N
N
 -0.109
-0.112
-0.161
-0.042
-0.099
G hsa-miR-1224-3p
hsa-miR-2355-5p
hsa-miR-4286
hsa-miR-6734-3p
2
2
2
2
 cAGGTGGGgaagg
caggTGGGGAAgg
cagGTGGGGAagg
caggtgGGGAAGG
 Created
Created
Created
Created
N
N
N
N
 -0.139
-0.112
-0.161
-0.219
236903863 rs74146663 T T hsa-miR-577
2
 acattgTTTATCT
 Disrupted
N
 -0.085
C hsa-miR-3908
2
 aCATTGCTtatct
 Created
N
 -0.224

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