Variant report
| Variant | rs1477722 |
|---|---|
| Chromosome Location | chr20:52902515-52902516 |
| 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:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr20:52823268..52824911-chr20:52902015..52904220,2 | MCF-7 | breast: | |
| 2 | chr20:52902315..52904046-chr20:52922393..52924271,2 | MCF-7 | breast: | |
| 3 | chr20:52897327..52899009-chr20:52901309..52903934,2 | K562 | blood: | |
| 4 | chr20:52901774..52903726-chr20:52915299..52918140,2 | MCF-7 | breast: | |
| 5 | chr20:52891487..52895363-chr20:52902222..52905146,4 | 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:11)
| rs_ID | r2[population] |
|---|---|
| rs10485793 | 0.85[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs1382011 | 0.83[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs1477723 | 0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs28555372 | 0.84[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs4811499 | 0.89[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs4811500 | 0.89[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs6123369 | 0.82[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs6127167 | 0.86[EUR][1000 genomes] |
| rs62216588 | 0.82[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs62216601 | 0.86[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs73137483 | 0.85[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 |
Chromatin state (count:0 , 50 per page) page:
| No data |
