Variant report
| Variant | rs73285988 |
|---|---|
| Chromosome Location | chr20:52898081-52898082 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr20:52823411..52826205-chr20:52895497..52899712,3 | MCF-7 | breast: | |
| 2 | chr20:52897327..52899009-chr20:52901309..52903934,2 | K562 | blood: | |
| 3 | chr10:7914281..7916763-chr20:52896829..52898926,2 | MCF-7 | breast: | |
| 4 | chr20:52835609..52839947-chr20:52897046..52901468,5 | MCF-7 | breast: | |
| 5 | chr20:52897965..52899622-chr20:52923358..52924887,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000101132 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:39)
| rs_ID | r2[population] |
|---|---|
| rs1477741 | 0.92[AFR][1000 genomes] |
| rs367149 | 1.00[EUR][1000 genomes] |
| rs372987 | 1.00[EUR][1000 genomes] |
| rs374623 | 1.00[EUR][1000 genomes] |
| rs377448 | 1.00[EUR][1000 genomes] |
| rs378666 | 1.00[EUR][1000 genomes] |
| rs378668 | 1.00[EUR][1000 genomes] |
| rs380980 | 1.00[EUR][1000 genomes] |
| rs383890 | 1.00[EUR][1000 genomes] |
| rs389806 | 1.00[EUR][1000 genomes] |
| rs393866 | 1.00[EUR][1000 genomes] |
| rs396957 | 1.00[EUR][1000 genomes] |
| rs404705 | 1.00[EUR][1000 genomes] |
| rs406389 | 1.00[EUR][1000 genomes] |
| rs414058 | 1.00[EUR][1000 genomes] |
| rs415230 | 1.00[EUR][1000 genomes] |
| rs416263 | 1.00[EUR][1000 genomes] |
| rs416724 | 1.00[EUR][1000 genomes] |
| rs418191 | 1.00[EUR][1000 genomes] |
| rs422615 | 1.00[EUR][1000 genomes] |
| rs422818 | 1.00[EUR][1000 genomes] |
| rs423338 | 1.00[EUR][1000 genomes] |
| rs424195 | 1.00[EUR][1000 genomes] |
| rs425792 | 1.00[EUR][1000 genomes] |
| rs429350 | 1.00[EUR][1000 genomes] |
| rs437970 | 1.00[EUR][1000 genomes] |
| rs446835 | 1.00[EUR][1000 genomes] |
| rs6013929 | 1.00[EUR][1000 genomes] |
| rs6013931 | 1.00[EUR][1000 genomes] |
| rs6013932 | 1.00[EUR][1000 genomes] |
| rs6013934 | 1.00[EUR][1000 genomes] |
| rs6023039 | 1.00[EUR][1000 genomes] |
| rs6023040 | 1.00[EUR][1000 genomes] |
| rs6023041 | 1.00[EUR][1000 genomes] |
| rs6023046 | 1.00[EUR][1000 genomes] |
| rs6023047 | 1.00[EUR][1000 genomes] |
| rs6097888 | 0.85[AFR][1000 genomes] |
| rs6127144 | 1.00[EUR][1000 genomes] |
| rs73285983 | 0.82[AFR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 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 |
| 3 | nsv834011 | chr20:52858341-53086042 | Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS | Chromatin interactive regionlncRNA | 55 gene(s) | inside rSNPs | diseases |
| 4 | nsv962638 | chr20:52883415-52917517 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS | Chromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr20:52895400-52899200 | Weak transcription | Fetal Brain Male | brain |
