Variant report
| Variant | rs7652840 |
|---|---|
| Chromosome Location | chr3:89209810-89209811 |
| allele | C/T |
| 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 | chr3:89207136..89210104-chr3:89214868..89216855,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:26)
| rs_ID | r2[population] |
|---|---|
| rs11128070 | 0.83[AMR][1000 genomes] |
| rs12494816 | 0.83[AMR][1000 genomes] |
| rs6551398 | 0.83[AMR][1000 genomes] |
| rs6551399 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6551405 | 1.00[CHB][hapmap] |
| rs6551408 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs6767230 | 0.83[AMR][1000 genomes] |
| rs6790662 | 0.83[AMR][1000 genomes] |
| rs6793981 | 0.83[AMR][1000 genomes] |
| rs6800287 | 0.83[AMR][1000 genomes] |
| rs6807840 | 0.83[AMR][1000 genomes] |
| rs7426466 | 0.83[AMR][1000 genomes] |
| rs7632543 | 0.83[AMR][1000 genomes] |
| rs7636079 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7640398 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs9310108 | 0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs9810701 | 0.83[AMR][1000 genomes] |
| rs9811026 | 0.83[AMR][1000 genomes] |
| rs9814718 | 0.83[AMR][1000 genomes] |
| rs9828822 | 0.83[AMR][1000 genomes] |
| rs9829805 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9839955 | 1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs9859735 | 0.83[AMR][1000 genomes] |
| rs9861649 | 0.83[AMR][1000 genomes] |
| rs9868041 | 0.83[AMR][1000 genomes] |
| rs9883722 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][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 | nsv834760 | chr3:89085529-89299398 | Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv1005603 | chr3:89174152-89223459 | Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS | Chromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 3 | nsv997874 | chr3:89188275-89279573 | Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription | Chromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 4 | nsv1008916 | chr3:89206065-89241915 | Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer | Chromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:89205800-89210200 | Weak transcription | Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells | embryonic stem cell |
| 2 | chr3:89206000-89211800 | Weak transcription | Ganglion Eminence derived primary cultured neurospheres | brain |
