| SomamiR DB 2.0 Somatic mutations altering microRNA-ceRNA interactions |
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| RefSeq ID: | NM_000159 |
|---|---|
| Gene Symbol: | GCDH |
| Description: | Homo sapiens glutaryl-CoA dehydrogenase (GCDH), nuclear gene encoding mitochondrial protein, transcript variant 1, mRNA. |
| Gene Location: | chr19(+):13001973-13010783 |
| Browse Pathways | |
| Mutation | Mutation ID | Sample Name | Cancer Type | ||||||
|---|---|---|---|---|---|---|---|---|---|
| chr19:g.12899652G>A | COSN5434813 | RK030_C01 | [liver][NS][carcinoma][NS] | ||||||
| miRNA Targets Table | |||||||||
| miR ID | miRSite | Conservation | miRSeed | SeedClass | FuncClass | Wildtype CS+ | Mutant CS+ | PITA score change | |
| hsa-miR-1229 |
gatggaGTGAGAagtgaga |
0 | CUCUCACC | m6b | Created | no TS | -0.098000 |
0.170000 |
|
| hsa-miR-1260a |
gatggaGTGGGAagtgaga |
0 | AUCCCACC | m6b | Disrupted | -0.146000 | no TS |
13.130000 |
|
| hsa-miR-1260b |
gatggaGTGGGAagtgaga |
0 | AUCCCACC | m6b | Disrupted | -0.146000 | no TS |
11.470000 |
|
| hsa-miR-1304-3p |
gatggAGTGAGAagtgaga |
8 |
UCUCACUG | m7a | Created | -0.074000 | -0.168000 |
-0.090000 |
|
| hsa-miR-188-3p |
gatggaGTGGGAagtgaga |
0 | CUCCCACA | m6b | Disrupted | -0.128000 | no TS |
1.380000 |
|
| hsa-miR-3156-3p |
gatggAGTGGGAagtgaga |
0 | CUCCCACU | m7b | Disrupted | -0.337000 | no TS |
4.190000 |
|
| hsa-miR-4301 |
gatggAGTGGGAagtgaga |
0 | UCCCACUA | m7a | Disrupted | -0.160000 | no TS |
-1.010000 |
|
| Mutation | Mutation ID | Sample Name | Cancer Type | ||||||
|---|---|---|---|---|---|---|---|---|---|
| chr19:g.12899705C>T | ICGC_1435161 | TCGA-AX-A0J0-01A-11D-A117-09 | UterineCorpusEndometrioidCarcinoma(TCGA,US) | ||||||
| miRNA Targets Table | |||||||||
| miR ID | miRSite | Conservation | miRSeed | SeedClass | FuncClass | Wildtype CS+ | Mutant CS+ | PITA score change | |
| hsa-miR-4539 |
gaagtcGTTCAGatgtgtt |
0 | GCUGAACU | m6b | Disrupted | -0.122 | no TS |
1.15 |
|
| Mutation | Mutation ID | Sample Name | Cancer Type | ||||||
|---|---|---|---|---|---|---|---|---|---|
| chr19:g.12899799T>G | 11_3239 | 2542 | Breast cancer | ||||||
| miRNA Targets Table | |||||||||
| miR ID | miRSite | Conservation | miRSeed | SeedClass | FuncClass | Wildtype CS+ | Mutant CS+ | PITA score change | |
| hsa-miR-130b-5p |
accctGAAAGAGcagcttc |
6 |
ACUCUUUC | m7b | Created | no TS | -0.073 |
0.1 |
|
| hsa-miR-138-2-3p |
accctGAAATAGCagcttc |
6 |
GCUAUUUC | m8a | Disrupted | -0.029 | no TS |
2.22 |
|
| hsa-miR-205-3p |
accCTGAAATagcagcttc |
6 |
GAUUUCAG | m7b | (m7b->m6b) | -0.07 | no TS |
6.31 |
|
| Mutation | Mutation ID | Sample Name | Cancer Type | ||||||
|---|---|---|---|---|---|---|---|---|---|
| chr19:g.12899829G>T | COSN14654213 | TCGA-B6-A401-01 | [breast][NS][carcinoma][NS] | ||||||
| miRNA Targets Table | |||||||||
| miR ID | miRSite | Conservation | miRSeed | SeedClass | FuncClass | Wildtype CS+ | Mutant CS+ | PITA score change | |
| hsa-miR-2115-5p |
gagtgacaTGGAAGCaact |
1 |
AGCUUCCA | m7b | Disrupted | -0.376000 | no TS |
1.820000 |
|
| hsa-miR-3977 |
gagtgacatTGAAGCAact |
5 |
GUGCUUCA | m7b | (m6c->m7b) | -0.083000 | -0.272000 |
-4.310000 |
|
| hsa-miR-4716-5p |
gagtgACATGGAagcaact |
1 |
UCCAUGUU | m7a | Disrupted | -0.099000 | no TS |
5.480000 |
|
| hsa-miR-516a-3p |
gagtgacatGGAAGCAact |
1 |
UGCUUCCU | m7a | (m7a->m6b) | -0.123000 | no TS | No effect | |
| hsa-miR-516b-3p |
gagtgacatGGAAGCAact |
1 |
UGCUUCCU | m7a | (m7a->m6b) | -0.123000 | no TS | No effect | |
| hsa-miR-2115-5p |
gagtgacaTGGAAGCaact |
1 |
AGCUUCCA | m7b | Disrupted | -0.376000 | no TS |
1.820000 |
|
| hsa-miR-3977 |
gagtgacatTGAAGCAact |
5 |
GUGCUUCA | m7b | (m6c->m7b) | -0.083000 | -0.272000 |
-4.310000 |
|
| hsa-miR-4716-5p |
gagtgACATGGAagcaact |
1 |
UCCAUGUU | m7a | Disrupted | -0.099000 | no TS |
5.480000 |
|
| hsa-miR-516a-3p |
gagtgacatGGAAGCAact |
1 |
UGCUUCCU | m7a | (m7a->m6b) | -0.123000 | no TS | No effect | |
| hsa-miR-516b-3p |
gagtgacatGGAAGCAact |
1 |
UGCUUCCU | m7a | (m7a->m6b) | -0.123000 | no TS | No effect | |
| Mutation | Mutation ID | Sample Name | Cancer Type | |||||
|---|---|---|---|---|---|---|---|---|
| chr19:g.12899881G>T | COSN8604992 | J6_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-106b-3p |
tcaCAGTGCGccctccctc |
0 | CCGCACUG | m7b | (m7b->m6b) | -0.263000 | no TS |
3.350000 |
| hsa-miR-4419a |
tcacagtgCTCCCTCcctc |
1 |
UGAGGGAG | m7b | Created | -0.241000 | -0.426000 |
0.560000 |
| hsa-miR-4510 |
tcacagtgCTCCCTCcctc |
1 |
UGAGGGAG | m7b | Created | -0.222000 | -0.398000 |
0.930000 |
| Location | SNP ID | Ancestral Allele |
Allele | miR ID | Conservation | miRSite | FuncClass | Validation | context+ score change |
|---|---|---|---|---|---|---|---|---|---|
| 12899702 | rs113720193 | G | G |
hsa-miR-4539 |
0 |
gaagtcGTTCAGA |
Disrupted |
N |
-0.122 |
| A |
hsa-miR-4427 hsa-miR-4680-3p hsa-miR-5187-3p hsa-miR-617 hsa-miR-6505-3p |
0 |
gaagtcATTCAGA gaagtcATTCAGA gaagtcATTCAGA GAAGTCAttcaga GAAGTCAttcaga |
Created Created Created Created Created |
N N N N N |
-0.079 -0.072 -0.08 -0.137 -0.121 |
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| 12899706 | rs8012 | G | A |
hsa-miR-4539 |
0 |
tcGTTCAGAtgtg |
Created |
N |
-0.122 |
| G |
hsa-miR-6716-3p |
0 |
tcGTTCGGAtgtg |
Disrupted |
N |
-0.267 |
|||
| 12899829 | rs9384 | T | G |
hsa-miR-2115-5p hsa-miR-4716-5p hsa-miR-516a-3p hsa-miR-516b-3p hsa-miR-5581-3p hsa-miR-7162-5p |
1 1 1 1 1 1 |
tgacaTGGAAGCA tgACATGGAagca tgacatGGAAGCA tgacatGGAAGCA tgaCATGGAAgca tgacatGGAAGCA |
Created Created Created Created Created Created |
N N N N N N |
-0.376 -0.099 -0.123 -0.123 -0.078 -0.129 |
| T |
hsa-miR-3977 hsa-miR-513b-3p |
1 1 |
tgacatTGAAGCA TGACATTgaagca |
Disrupted Disrupted |
N N |
-0.189 -0.048 |
|||
| 12899881 | rs190174770 | G | G |
hsa-miR-106b-3p hsa-miR-6722-5p |
2 4 |
CAGTGCGccctcc caGTGCGCCctcc |
Disrupted Disrupted |
N N |
-0.263 -0.303 |
| A |
hsa-miR-6804-5p |
4 |
cagtgCACCCTCc |
Created |
N |
-0.149 |