Variant report
| Variant | rs7176165 |
|---|---|
| Chromosome Location | chr15:60458955-60458956 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr15:60458055..60459692-chr15:60460682..60462408,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:20)
| rs_ID | r2[population] |
|---|---|
| rs11633358 | 0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs11639451 | 0.89[ASN][1000 genomes] |
| rs12439203 | 0.85[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1481834 | 0.94[EUR][1000 genomes] |
| rs1545872 | 0.89[ASN][1000 genomes] |
| rs1545873 | 0.80[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs1545875 | 0.86[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1552129 | 0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs16942196 | 0.84[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs338415 | 0.82[ASN][1000 genomes] |
| rs338416 | 0.81[ASN][1000 genomes] |
| rs4774356 | 0.80[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs4775239 | 0.80[AFR][1000 genomes];0.89[ASN][1000 genomes] |
| rs6494168 | 0.82[AFR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7175268 | 0.81[AMR][1000 genomes];0.86[ASN][1000 genomes] |
| rs8036508 | 0.85[AFR][1000 genomes];0.86[ASN][1000 genomes] |
| rs8040351 | 0.83[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs8042339 | 0.82[ASN][1000 genomes] |
| rs8042376 | 0.82[ASN][1000 genomes] |
| rs8042476 | 0.82[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv904280 | chr15:60042722-60524025 | Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7176165 | TRIM22 | trans | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr15:60454400-60464800 | Weak transcription | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
