Variant report
| Variant | rs13426129 |
|---|---|
| Chromosome Location | chr2:20609290-20609291 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr16:69290869..69293281-chr2:20609230..20610894,2 | MCF-7 | breast: | |
| 2 | chr2:20607895..20612833-chr2:20645228..20650823,10 | MCF-7 | breast: | |
| 3 | chr2:20607947..20609876-chr2:20833960..20836883,2 | MCF-7 | breast: | |
| 4 | chr2:20605399..20609856-chr2:20645106..20649834,5 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000228950 | Chromatin interaction |
| ENSG00000143878 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs10184232 | 0.83[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs10184455 | 0.84[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs10193127 | 0.89[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs10195745 | 0.89[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs10205262 | 0.89[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs10205683 | 0.91[AMR][1000 genomes];0.96[ASN][1000 genomes] |
| rs12618692 | 0.83[AMR][1000 genomes];0.96[ASN][1000 genomes] |
| rs13419739 | 0.87[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs13428398 | 0.91[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs13428611 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs13431644 | 0.89[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs6724230 | 0.87[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs6739062 | 0.87[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs6739079 | 0.87[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs6742002 | 0.89[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs6742129 | 0.87[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs6745745 | 0.91[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs6756207 | 0.91[AMR][1000 genomes];0.96[ASN][1000 genomes] |
| rs73220034 | 0.91[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs73220035 | 0.89[AMR][1000 genomes];0.94[ASN][1000 genomes] |
| rs7596292 | 0.87[AMR][1000 genomes];0.93[ASN][1000 genomes] |
| rs7608432 | 0.84[AMR][1000 genomes];0.94[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 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 | nsv873716 | chr2:20572094-20621404 | Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv581165 | chr2:20581058-20616990 | Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:20601400-20614800 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
