Variant report
| Variant | rs371012 |
|---|---|
| Chromosome Location | chr20:52853182-52853183 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:7)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:7 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr20:52850887..52853833-chr20:52876658..52879639,2 | MCF-7 | breast: | |
| 2 | chr20:52843581..52850062-chr20:52850195..52855343,9 | MCF-7 | breast: | |
| 3 | chr20:52852339..52854018-chr20:53262598..53264931,2 | MCF-7 | breast: | |
| 4 | chr20:52851637..52853511-chr20:52855095..52857097,2 | MCF-7 | breast: | |
| 5 | chr20:52852456..52856671-chr20:52869199..52873917,7 | MCF-7 | breast: | |
| 6 | chr20:52852394..52854365-chr20:53090904..53092475,2 | MCF-7 | breast: | |
| 7 | chr20:52852335..52854423-chr20:53245467..53248244,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000101134 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:29)
| rs_ID | r2[population] |
|---|---|
| rs2756032 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs366424 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs367149 | 1.00[AFR][1000 genomes] |
| rs368604 | 1.00[AFR][1000 genomes] |
| rs372987 | 0.96[AFR][1000 genomes] |
| rs377448 | 1.00[AFR][1000 genomes] |
| rs378666 | 1.00[AFR][1000 genomes] |
| rs378668 | 0.90[AFR][1000 genomes] |
| rs380980 | 0.93[AFR][1000 genomes] |
| rs383890 | 1.00[AFR][1000 genomes] |
| rs389806 | 1.00[AFR][1000 genomes] |
| rs393866 | 1.00[AFR][1000 genomes] |
| rs396957 | 0.93[AFR][1000 genomes] |
| rs404705 | 1.00[AFR][1000 genomes] |
| rs406389 | 0.96[AFR][1000 genomes] |
| rs414058 | 1.00[AFR][1000 genomes] |
| rs415230 | 0.96[AFR][1000 genomes] |
| rs416263 | 1.00[AFR][1000 genomes] |
| rs416724 | 0.96[AFR][1000 genomes] |
| rs418191 | 1.00[AFR][1000 genomes] |
| rs422615 | 1.00[AFR][1000 genomes] |
| rs422818 | 0.96[AFR][1000 genomes] |
| rs423338 | 1.00[AFR][1000 genomes] |
| rs424195 | 1.00[AFR][1000 genomes] |
| rs425792 | 0.96[AFR][1000 genomes] |
| rs429350 | 1.00[AFR][1000 genomes] |
| rs432270 | 0.96[AFR][1000 genomes] |
| rs437970 | 0.93[AFR][1000 genomes] |
| rs446835 | 1.00[AFR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv586224 | chr20:52474850-53279490 | Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 338 gene(s) | inside rSNPs | diseases |
| 2 | nsv834010 | chr20:52759824-52932939 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 119 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr20:52852800-52853200 | Enhancers | H1 BMP4 Derived Trophoblast Cultured Cells | ES cell derived |
