Variant report
| Variant | rs2822662 |
|---|---|
| Chromosome Location | chr21:15788373-15788374 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr21:15787706..15790405-chr21:16436901..16438934,2 | MCF-7 | breast: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-HSPA13-1 | chr21:15788122-15789088 | NONHSAT081162 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000180530 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs1040330 | 1.00[JPT][hapmap] |
| rs11908970 | 0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12479 | 0.86[GIH][hapmap];1.00[JPT][hapmap] |
| rs2142240 | 0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs2822636 | 0.86[GIH][hapmap];1.00[JPT][hapmap] |
| rs2822638 | 0.86[GIH][hapmap];0.91[JPT][hapmap] |
| rs2822642 | 0.86[GIH][hapmap];1.00[JPT][hapmap] |
| rs2822644 | 1.00[JPT][hapmap] |
| rs2822649 | 0.83[JPT][hapmap] |
| rs2822650 | 0.83[JPT][hapmap] |
| rs2822652 | 1.00[JPT][hapmap] |
| rs2822655 | 0.86[ASN][1000 genomes] |
| rs2822661 | 0.83[JPT][hapmap] |
| rs7282521 | 1.00[JPT][hapmap] |
| rs9974630 | 0.86[ASN][1000 genomes] |
| rs9984779 | 0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][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 | nsv1064554 | chr21:15676222-15809321 | Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv1063703 | chr21:15777995-15882121 | Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv544375 | chr21:15777995-15882121 | Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
