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_002957
Gene Symbol: RXRA
Description: Homo sapiens retinoid X receptor, alpha (RXRA), mRNA.
Gene Location: chr9(+):137218315-137332431
Browse Associations
Browse Pathways

Somatic mutations that impact miRNA target sites


Mutation Mutation ID Sample Name Cancer Type
chr9:g.134436653A>C COSN8316118 TCGA-A2-A0T5-01 [breast][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-1909-3p gttctggccCCCCTGCctg
 4
 CGCAGGGG m7b (m6c->m7b) -0.019000 -0.170000 -0.980000
hsa-miR-4435 gttCTGGCCAccctgcctg
 0 AUGGCCAG m7b (m7b->m6b) -0.091000 0.075000 0.170000
hsa-miR-4640-5p gttCTGGCCCccctgcctg
 0 UGGGCCAG m7b (m6b->m7b) -0.238000 -0.432000 -0.310000
hsa-miR-4726-5p gttCTGGCCCccctgcctg
 0 AGGGCCAG m7b (m6b->m7b) -0.217000 -0.420000 -2.520000

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134437370G>C COSN8520215 3584_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-589-3p tggTGTTCTGgtttcagac
 1
 UCAGAACA m7b (m7b->m6b) 0.017000 no TS 0.190000

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134437460G>A COSN14752812 CHC205T [liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3184-3p tgggctGAGACTTgtcctt
 0 AAAGUCUC m7b Created no TS 0.009000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134437790G>A COSN15223035 SM-4AX84 [oesophagus][NS][carcinoma][adenocarcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-4431 gagaacccgGAGTCGCagc
 0 GCGACUCU m7a (m7a->m6b) NA NA 2.370000

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134437854G>T COSN1374985 HCC70T [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3138 cctggtatTGTCCACggac
 1
 UGUGGACA m7b Disrupted -0.038000 no TS 0.040000

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134437879G>C COSN9702287 AOCS-086-3-2 [ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-326 gttcaCCCAGAGccttact
 2
 CCUCUGGG m7b Disrupted -0.014000 no TS No effect
hsa-miR-330-5p gttcaCCCAGAGccttact
 2
 UCUCUGGG m7b Disrupted -0.023000 no TS 0.010000
hsa-miR-760 gttcaccCAGAGCCttact
 0 CGGCUCUG m7b Disrupted 0.006000 0.026000 0.390000

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134438527C>G COSN8316119 TCGA-A7-A5ZV-01 [breast][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3165 ccgATCCACCgtcctgagg
 1
 AGGUGGAU m7b (m7b->m6b) 0.129000 no TS 1.730000

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134438710C>T COSN9702288 AOCS-119-3-9 [ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-124-3p cacctgGTGCCTTctgcag
 13
 UAAGGCAC m7b Disrupted 0.045000 -0.041000 No effect
hsa-miR-506-3p cacctgGTGCCTTctgcag
 13
 UAAGGCAC m7b Disrupted 0.064000 -0.041000 No effect
hsa-miR-593-5p caccTGGTGCCTtctgcag
 3
 AGGCACCA m8a Disrupted -0.352000 -0.344000 No effect

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134438737G>A COSN8296416 PCSI_0311_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-3622b-5p cacccatCCATGCCcggac
 0 AGGCAUGG m7b Created no TS 0.044000 -1.500000
hsa-miR-4253 cacccatcCATGCCCggac
 0 AGGGCAUG m7b Created no TS 0.049000 -1.770000
hsa-miR-432-3p cacCCATCCAtgcccggac
 0 CUGGAUGG m7b (m6b->m7b) no TS 0.128000 No effect
hsa-miR-490-5p cacccATCCATGcccggac
 0 CCAUGGAU m7b Created no TS 0.166000 -1.340000
hsa-miR-564 cacccatCCGTGCCcggac
 0 AGGCACGG m7b Disrupted -0.028000 no TS No effect


Mutation Mutation ID Sample Name Cancer Type
chr9:g.134438747C>T COSN4887135 tumor_4107137 [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
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
chr9:g.134439239G>T COSN1374986 HCC28T [liver][NS][carcinoma][hepatocellular_carcinoma]
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
chr9:g.134439284T>A COSN9702289 AOCS-150-3-1 [ovary][NS][other][neoplasm]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-1915-3p gctgcttCCTGGGGaccca
 0 CCCCAGGG m7a Disrupted -0.013000 -0.013000 0.010000
hsa-miR-2355-5p gctgcttcCTGGGGAccca
 1
 AUCCCCAG m7b Disrupted 0.087000 0.010000 0.770000
hsa-miR-331-3p gctgcttCCAGGGGaccca
 0 GCCCCUGG m7b Created no TS -0.108000 No effect
hsa-miR-4292 gctgcttCCAGGGGaccca
 1
 CCCCUGGG m7a Created -0.179000 -0.198000 -0.500000
hsa-miR-4308 gctgctTCCAGGGgaccca
 2
 UCCCUGGA m7b Created 0.023000 0.054000 -0.010000

Mutation Mutation ID Sample Name Cancer Type
chr9:g.134440465T>G COSN14790364 CHC205T [liver][NS][carcinoma][hepatocellular_carcinoma]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3622a-3p atcgtggccTCAGGTGcca
 0 UCACCUGA m7b (m7b->m6c) -0.120000 no TS No effect
hsa-miR-3622b-3p atcgtggccTCAGGTGcca
 0 UCACCUGA m7b (m7b->m6c) -0.101000 no TS No effect
hsa-miR-4649-3p atcgtgGCCTCAGgtgcca
 0 UCUGAGGC m7b Disrupted -0.035000 0.104000 No effect
hsa-miR-4717-5p atcGTGGCCTcaggtgcca
 0 UAGGCCAC m7b (m7b->m6b) -0.275000 -0.078000 0.150000
hsa-miR-544b atcgtggCCTCAGGTgcca
 0 ACCUGAGG m8a Disrupted -0.110000 0.040000 1.010000

*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
134436643 rs35678595 C C hsa-miR-6756-5p
hsa-miR-6766-5p
4
4
 CCCACCCgttctg
CCCACCCgttctg
 Disrupted
Disrupted
N
N
 -0.207
-0.198
T hsa-miR-4773
hsa-miR-552-3p
hsa-miR-589-3p
1
1
1
 cccacCTGTTCTg
ccCACCTGTtctg
cccaccTGTTCTG
 Created
Created
Created
N
N
N
 -0.026
-0.088
-0.01
134437460 rs4240711 G G hsa-miR-7109-3p
2
 gctGAGGCTTgtc
 Disrupted
N
 -0.069
A hsa-miR-3184-3p
hsa-miR-6787-3p
hsa-miR-6882-5p
2
2
2
 gctGAGACTTgtc
GCTGAGActtgtc
gctgaGACTTGTc
 Created
Created
Created
N
N
N
 0.009
-0.024
-0.005
134437731 rs35125388 - TC hsa-miR-4468
hsa-miR-6510-5p
1
2
 cccCTGCTCAggcct
cCCCTGCTcaggcct
 Unknown
Unknown
N
N
 0.036
0.044
- hsa-miR-1205
hsa-miR-1909-3p
hsa-miR-6132
hsa-miR-6722-3p
hsa-miR-6836-5p
2
2
2
2
2
 ccCCTGCAGgcct
CCCCTGCAggcct
cCCCTGCAggcct
CCCCTGCAggcct
cCCCTGCAggcct
 Unknown
Unknown
Unknown
Unknown
Unknown
N
N
N
N
N
 0.071
-0.075
-0.021
-0.074
-0.018
134437808 rs35283205 G G hsa-miR-4747-3p
5
 cctCGGGCCTggg
 Disrupted
N
 -0.046
C hsa-miR-1915-3p
hsa-miR-3918
hsa-miR-4685-5p
hsa-miR-6764-5p
hsa-miR-6837-5p
hsa-miR-6877-5p
2
5
2
2
2
5
 cctcggCCCTGGG
cctcGGCCCTGgg
cctcgGCCCTGGg
cctcggCCCTGGG
cctcgGCCCTGGg
ccTCGGCCCtggg
 Created
Created
Created
Created
Created
Created
N
N
N
N
N
N
 0.038
0.032
0.033
0.066
0.005
-0.045
134438923 rs190302486 G G hsa-miR-4435
hsa-miR-663b
hsa-miR-7108-5p
hsa-miR-7113-5p
21
3
7
2
 tccCTGGCCAcag
tccctGGCCACAg
tccctGGCCACAg
TCCCTGGccacag
 Disrupted
Disrupted
Disrupted
Disrupted
N
N
N
N
 0.075
0.009
-0.008
0.094
C hsa-miR-1207-5p
hsa-miR-134-3p
hsa-miR-4265
hsa-miR-4296
hsa-miR-4322
hsa-miR-4417
hsa-miR-4763-3p
hsa-miR-6721-5p
3
3
3
3
3
3
3
7
 tCCCTGCCcacag
tccctgCCCACAG
tccctGCCCACAg
tccctGCCCACAg
tccctGCCCACAg
tccctGCCCACAg
tCCCTGCCcacag
tcCCTGCCCAcag
 Created
Created
Created
Created
Created
Created
Created
Created
N
N
N
N
N
N
N
N
 0.01
0.077
0.038
0.001
0.02
-0.007
0.01
0.016
134438933 rs36004541 C C hsa-miR-6762-3p
4
 cAGCAGCCttacc
 Disrupted
N
 0.028
A hsa-miR-1264
hsa-miR-3184-3p
hsa-miR-3692-5p
hsa-miR-6071
hsa-miR-93-3p
6
6
2
2
2
 cagcAGACTTAcc
cagcAGACTTAcc
CAGCAGActtacc
CAGCAGActtacc
CAGCAGActtacc
 Created
Created
Created
Created
Created
N
N
N
N
N
 0.137
0.13
0.075
0.029
0.075
134439623 rs72006046 - - hsa-miR-1343-3p
hsa-miR-4290
hsa-miR-4667-3p
hsa-miR-660-3p
hsa-miR-6742-3p
hsa-miR-6776-5p
hsa-miR-6783-3p
hsa-miR-6852-5p
hsa-miR-939-3p
10
10
10
10
2
2
10
10
10
 caCCCAGGAgggc
cacccaGGAGGGC
cacccAGGAGGGc
caccCAGGAGGgc
cACCCAGGAgggc
CACCCAGgagggc
caCCCAGGAgggc
caCCCAGGAgggc
caCCCAGGAgggc
 Unknown
Unknown
Unknown
Unknown
Unknown
Unknown
Unknown
Unknown
Unknown
N
N
N
N
N
N
N
N
N
 0.004
-0.03
0.004
0.062
-0.072
-0.01
0.023
0.023
0.028
G hsa-miR-4292
hsa-miR-4308
hsa-miR-6791-5p
hsa-miR-7113-3p
10
10
10
10
 caCCCAGGGAgggc
cacCCAGGGAgggc
caCCCAGGGAgggc
caccCAGGGAGggc
 Unknown
Unknown
Unknown
Unknown
N
N
N
N
 -0.135
-0.007
-0.124
0.06
134440465 rs1045570 G T hsa-miR-3622a-3p
hsa-miR-3622b-3p
hsa-miR-4649-3p
hsa-miR-4717-5p
hsa-miR-5008-5p
hsa-miR-544b
hsa-miR-6089
10
10
0
0
0
0
0
 gtggccTCAGGTG
gtggccTCAGGTG
gtgGCCTCAGgtg
GTGGCCTcaggtg
gtGGCCTCAggtg
gtggCCTCAGGtg
gtGGCCTCAggtg
 Created
Created
Created
Created
Created
Created
Created
N
N
N
N
N
N
N
 -0.12
-0.101
-0.139
-0.197
-0.163
-0.15
-0.167
G hsa-miR-1199-3p
0 gtGGCCGCAggtg
 Disrupted
N
 -0.273

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