Variant report
| Variant | rs2822661 |
|---|---|
| Chromosome Location | chr21:15787738-15787739 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr21:15787706..15790405-chr21:16436901..16438934,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000180530 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs1040330 | 0.83[JPT][hapmap] |
| rs10470144 | 0.86[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs10470145 | 0.86[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs12479 | 0.83[JPT][hapmap] |
| rs1882881 | 0.82[JPT][hapmap] |
| rs2242661 | 0.81[CHB][hapmap];0.81[ASN][1000 genomes] |
| rs2242662 | 0.81[ASN][1000 genomes] |
| rs2822636 | 0.83[JPT][hapmap] |
| rs2822642 | 0.83[JPT][hapmap] |
| rs2822644 | 0.83[JPT][hapmap] |
| rs2822648 | 0.82[CHB][hapmap];0.81[YRI][hapmap];0.81[ASN][1000 genomes] |
| rs2822649 | 0.86[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.88[ASN][1000 genomes] |
| rs2822650 | 0.86[CHB][hapmap];0.91[JPT][hapmap];0.96[YRI][hapmap];0.88[ASN][1000 genomes] |
| rs2822651 | 0.88[ASN][1000 genomes] |
| rs2822652 | 0.82[JPT][hapmap] |
| rs2822662 | 0.83[JPT][hapmap] |
| rs28456168 | 0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs34396263 | 0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs35244754 | 0.85[ASN][1000 genomes] |
| rs67163096 | 0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7282521 | 0.83[JPT][hapmap] |
| rs9983469 | 0.85[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 |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr21:15786800-15788200 | Enhancers | GM12878-XiMat | blood |
| 2 | chr21:15787400-15787800 | Enhancers | iPS-18 Cell Line | embryonic stem cell |
