Variant report
| Variant | rs6789421 |
|---|---|
| Chromosome Location | chr3:28270497-28270498 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr3:28270292..28273085-chr3:28279670..28282869,3 | MCF-7 | breast: | |
| 2 | chr11:77184165..77185067-chr3:28270408..28271332,2 | MCF-7 | breast: | |
| 3 | chr3:28269228..28272109-chr3:28273817..28276497,2 | K562 | blood: | |
| 4 | chr3:28267433..28273143-chr3:28280771..28285939,7 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000149269 | Chromatin interaction |
| ENSG00000268635 | Chromatin interaction |
| ENSG00000187118 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs1058569 | 0.94[JPT][hapmap] |
| rs11129315 | 0.94[JPT][hapmap] |
| rs1588666 | 0.84[ASN][1000 genomes] |
| rs1606389 | 1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1609729 | 0.94[JPT][hapmap] |
| rs1913142 | 0.84[ASN][1000 genomes] |
| rs35061656 | 0.84[ASN][1000 genomes] |
| rs6551247 | 0.81[CHB][hapmap];0.92[CHD][hapmap];0.94[JPT][hapmap] |
| rs6551253 | 0.83[CHD][hapmap];0.94[JPT][hapmap] |
| rs6791550 | 0.94[JPT][hapmap] |
| rs6795783 | 0.88[ASN][1000 genomes] |
| rs7611318 | 0.81[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes] |
| rs7612033 | 1.00[ASW][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap];0.81[MKK][hapmap] |
| rs7613767 | 0.81[CHD][hapmap];0.94[JPT][hapmap] |
| rs9637528 | 0.84[ASN][1000 genomes] |
| rs9831010 | 0.83[CHD][hapmap];0.89[JPT][hapmap] |
| rs996939 | 0.88[CHB][hapmap];0.84[JPT][hapmap];0.84[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 | esv3328565 | chr3:27991169-28915035 | Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 2 | nsv876648 | chr3:28060456-28280965 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 3 | nsv876649 | chr3:28126595-28718454 | Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 27 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:28270000-28272000 | Enhancers | HepG2 | liver |
| 2 | chr3:28270000-28280800 | Weak transcription | H9 Cell Line | embryonic stem cell |
