Variant report
| Variant | rs12873958 |
|---|---|
| Chromosome Location | chr13:55016096-55016097 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | POLR2A | chr13:55016062-55016262 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| RPL13AP25 | TF binding region |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs11617423 | 0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs11619606 | 0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs12583021 | 0.82[EUR][1000 genomes] |
| rs12857697 | 0.80[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs1932912 | 0.81[EUR][1000 genomes] |
| rs34150118 | 0.81[EUR][1000 genomes] |
| rs34540611 | 0.82[EUR][1000 genomes] |
| rs34751752 | 0.81[EUR][1000 genomes] |
| rs9527199 | 0.82[EUR][1000 genomes] |
| rs9527203 | 0.81[EUR][1000 genomes] |
| rs9527208 | 0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs9536707 | 0.81[EUR][1000 genomes] |
| rs9536708 | 0.81[EUR][1000 genomes] |
| rs9536709 | 0.81[EUR][1000 genomes] |
| rs9536719 | 0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs9536720 | 0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs9569024 | 0.81[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv3349795 | chr13:54892694-55252030 | Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 2 | esv2763025 | chr13:55004448-55023333 | Enhancers Weak transcription Flanking Active TSS Active TSS | TF binding regionCpG island | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv977246 | chr13:55013586-55019919 | Weak transcription | TF binding regionCpG island | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr13:55012200-55016200 | Weak transcription | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
