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_000135
Gene Symbol: FANCA
Description: Homo sapiens Fanconi anemia, complementation group A (FANCA), transcript variant 1, mRNA.
Gene Location: chr16(-):89803958-89883065

Somatic mutations that impact miRNA target sites



Mutation Mutation ID Sample Name Cancer Type
chr16:g.89737887A>A ICGC_47217 TCGA-DR-A0ZM-01A-12D-A10S-08 CervicalSquamousCellCarcinoma(TCGA,US)
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-30b-3p ttggCTCCCAaatgtcgca
0 CUGGGAGG m6b Created -0.068 -0.168 -0.36
hsa-miR-30c-1-3p ttggCTCCCAaatgtcgca
0 CUGGGAGA m6b Created no TS -0.108 -4.37
hsa-miR-30c-2-3p ttggCTCCCAaatgtcgca
0 CUGGGAGA m6b Created no TS -0.108 -3.54
hsa-miR-3122 ttggcTCCCAAatgtcgca
0 GUUGGGAC m6b Created no TS -0.069 -0.01
hsa-miR-3689a-3p ttggCTCCCAaatgtcgca
0 CUGGGAGG m6b Created -0.068 -0.158 -0.01
hsa-miR-3689b-3p ttggCTCCCAaatgtcgca
0 CUGGGAGG m6b Created -0.068 -0.165 -0.01
hsa-miR-3689c ttggCTCCCAaatgtcgca
0 CUGGGAGG m6b Created -0.068 -0.165 -0.01
hsa-miR-425-3p ttggcTCCCGAatgtcgca
0 AUCGGGAA m6b Disrupted -0.191 no TS 9.01
hsa-miR-4300 ttgGCTCCCAaatgtcgca
0 UGGGAGCU m7a (m6b->m7a) -0.194 -0.383 0.33
hsa-miR-5591-5p ttgGCTCCCAaatgtcgca
0 UGGGAGCU m7a (m6b->m7a) -0.213 -0.399 0.35

Mutation Mutation ID Sample Name Cancer Type
chr16:g.89738005T>C ICGC_1420159 TCGA-D1-A167-01A-11D-A12J-09 UterineCorpusEndometrioidCarcinoma(TCGA,US)
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3937 gatgcccgCCGCCTGcact
0 ACAGGCGG m7b Created -0.216 -0.394 -3.24
hsa-miR-3960 gatgcCCGCCGCCtgcact
0 GGCGGCGG m8a Created no TS -0.229 -0.83
hsa-miR-4269 gatgcccgcTGCCTGCact
0 GCAGGCAC m7a (m7a->m6a) NA NA 0.14
hsa-miR-4467 gatgccCGCCGCCtgcact
0 UGGCGGCG m7b Created no TS -0.219 -2.89
hsa-miR-4514 gatgcccgCTGCCTGcact
0 ACAGGCAG m7b Disrupted -0.064 no TS 3.52
hsa-miR-4692 gatgcccgCTGCCTGcact
0 UCAGGCAG m7b Disrupted -0.064 no TS 2.34
hsa-miR-885-3p gatgccCGCTGCCTgcact
0 AGGCAGCG m8a Disrupted -0.119 no TS 0.34

Mutation Mutation ID Sample Name Cancer Type
chr16:g.89738085G>A ICGC_1420160 TCGA-B5-A11E-01A-11D-A10M-09 UterineCorpusEndometrioidCarcinoma(TCGA,US)
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-876-3p tctcaAACCACCggccaca
0 UGGUGGUU m7b Created no TS -0.113 No effect

Mutation Mutation ID Sample Name Cancer Type
chr16:g.89738469T>A COSN4768142 tumor_4139696 [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-5692a ggaatcaATTATTTatgaa
6
CAAAUAAU m7b Disrupted 0.066000 no TS -0.850000
hsa-miR-944 ggaatcAATAATTTatgaa
16
AAAUUAUU m8a Created -0.046000 -0.024000 -0.060000

*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
89738224 rs55830337 G G hsa-miR-3937
hsa-miR-4755-3p
2
10
ttcaCCGCCTGgc
ttcaccGCCTGGC
Disrupted
Disrupted
N
N
-0.216
-0.144
89738225 rs56006529 C C hsa-miR-3937
2
cttcaCCGCCTGg
Disrupted
N
-0.216
T hsa-miR-2682-5p
hsa-miR-34a-5p
hsa-miR-34b-5p
hsa-miR-34c-5p
hsa-miR-449a
hsa-miR-449b-5p
hsa-miR-449c-5p
hsa-miR-4514
hsa-miR-4645-5p
hsa-miR-4673
hsa-miR-4692
2
2
2
2
2
2
2
2
2
2
2
cttcACTGCCTgg
cttCACTGCCtgg
cttcACTGCCTgg
cttCACTGCCtgg
cttCACTGCCtgg
cttCACTGCCtgg
cttcACTGCCTgg
cttcaCTGCCTGg
cttcacTGCCTGG
cttcacTGCCTGG
cttcaCTGCCTGg
Created
Created
Created
Created
Created
Created
Created
Created
Created
Created
Created
N
N
N
N
N
N
N
N
N
N
N
-0.039
-0.147
-0.048
-0.137
-0.1
-0.1
-0.057
-0.092
-0.07
-0.098
-0.074

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