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_017952
Gene Symbol: PTCD3
Description: Homo sapiens Pentatricopeptide repeat domain 3 (PTCD3), nuclear gene encoding mitochondrial protein, mRNA.
Gene Location: chr2(+):86333304-86369280
Browse Associations

Somatic mutations that impact miRNA target sites



Mutation Mutation ID Sample Name Cancer Type
chr2:g.86137625A>C COSN1243772 HCC98T [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-1285-5p agaacTGAGATataccaat
1
GAUCUCAC m6b Disrupted -0.122000 no TS No effect
hsa-miR-1285-5p agaacTGAGATataccaat
1
GAUCUCAC m6b Disrupted -0.122000 no TS No effect
hsa-miR-1285-5p agaacTGAGATataccaat
1
GAUCUCAC m6b Disrupted -0.122 no TS No effect

Mutation Mutation ID Sample Name Cancer Type
chr2:g.86137889C>T 0_125 Melanoma
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-3131 cgatgctGTCCTCGtgcga
6
UCGAGGAC m7b Disrupted -0.229 no TS No effect
hsa-miR-4773 cgatgCTGTTCTcgtgcga
3
CAGAACAG m7b Created -0.079 -0.096 No effect
hsa-miR-5004-5p cgatgcTGTCCTCgtgcga
5
UGAGGACA m7b Disrupted -0.088 no TS 0.34
hsa-miR-611 cgatgctGTCCTCGtgcga
6
GCGAGGAC m7b Disrupted -0.239 no TS 1.17


Mutation Mutation ID Sample Name Cancer Type
chr2:g.86138803A>G COSN15406011 AOCS-167-16-X [ovary][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
chr2:g.86139063A>C COSN10009539 C0025T [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
chr2:g.86139223G>A COSN5513200 RK104_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-1228-3p tcttcggccAGGTGTGgtg
0 UCACACCU m7b (m6c->m7b) no TS 0.075000 No effect
hsa-miR-941 tcttcgGCCGGGTGtggtg
1
CACCCGGC m8a Disrupted -0.113000 no TS 1.040000


Mutation Mutation ID Sample Name Cancer Type
chr2:g.86139395T>G COSN14655324 8069337 [pancreas][NS][carcinoid-endocrine_tumour][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
chr2:g.86139767T>C ICGC_6F4CB940-2A78-11E2-96E7-04FD496BB9B8 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-143-5p accACTGCACtccagcctg
0 GGUGCAGU m7b (m6b->m7b) -0.065 0.017 -0.42
hsa-miR-3135b accactgcaCTCCAGCCtg
0 GGCUGGAG m8a (m7b->m8a) -0.042 -0.093 -2.23
hsa-miR-3673 accactgCATTCCAgcctg
2
AUGGAAUG m7b Disrupted 0.164 no TS 0.61
hsa-miR-613 accactgCATTCCagcctg
2
AGGAAUGU m6b Disrupted 0.097 no TS No effect

Mutation Mutation ID Sample Name Cancer Type
chr2:g.86141058T>C COSN1861504 RK023_C01 [liver][NS][carcinoma][NS]
miRNA Targets Table
miR ID miRSite Conservation miRSeed SeedClass FuncClass Wildtype CS+ Mutant CS+ PITA score change
hsa-miR-10a-3p gacaGAATTTactcccagg
3
CAAAUUCG m6b Disrupted 0.123000 no TS No effect
hsa-miR-4452 gacaGAATTCActcccagg
0 UUGAAUUC m7b Created no TS 0.041000 -0.750000
hsa-miR-10a-3p gacaGAATTTactcccagg
3
CAAAUUCG m6b Disrupted 0.123000 no TS No effect
hsa-miR-4452 gacaGAATTCActcccagg
0 UUGAAUUC m7b Created no TS 0.041000 -0.750000
hsa-miR-10a-3p gacaGAATTTactcccagg
3
CAAAUUCG m6b Disrupted 0.123 no TS No effect
hsa-miR-4452 gacaGAATTCActcccagg
0 UUGAAUUC m7b Created no TS 0.041 -0.75

*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
86139399 rs4832024 A T hsa-miR-150-5p
hsa-miR-6750-3p
0 ggtgagTTGGGAG
gGTGAGTTgggag
Created
Created
N
N
0.081
0.117
A hsa-miR-1229-3p
hsa-miR-1285-5p
hsa-miR-2116-3p
hsa-miR-6511a-3p
hsa-miR-6511b-3p
hsa-miR-6784-3p
hsa-miR-6862-3p
0 GGTGAGAtgggag
gGTGAGATgggag
ggtgagATGGGAG
GGTGAGAtgggag
GGTGAGAtgggag
GGTGAGAtgggag
GGTGAGAtgggag
Disrupted
Disrupted
Disrupted
Disrupted
Disrupted
Disrupted
Disrupted
N
N
N
N
N
N
N
0.029
0.132
0.04
0.006
0.006
-0.031
-0.032
86141427 rs150937914 C C hsa-miR-298
hsa-miR-4773
hsa-miR-589-3p
8
3
3
tctgTTCTGCAct
tCTGTTCTgcact
tcTGTTCTGcact
Disrupted
Disrupted
Disrupted
N
N
N
-0.032
-0.079
-0.025
G hsa-miR-5003-5p
3
tcTGTTGTGcact
Created
N
-0.056

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