Variant report
| Variant | rs11720852 |
|---|---|
| Chromosome Location | chr3:180229598-180229599 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs10937033 | 0.90[EUR][1000 genomes] |
| rs10937035 | 0.90[EUR][1000 genomes] |
| rs10937036 | 0.90[EUR][1000 genomes] |
| rs11708417 | 0.81[EUR][1000 genomes] |
| rs11708495 | 0.81[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs11710138 | 0.87[EUR][1000 genomes] |
| rs11711462 | 1.00[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs11712424 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11713709 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11718627 | 0.90[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs11719620 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11719763 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11720361 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11916013 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs11924813 | 0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs16831394 | 0.89[EUR][1000 genomes] |
| rs16831521 | 0.90[EUR][1000 genomes] |
| rs35888957 | 0.95[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs57987078 | 0.84[EUR][1000 genomes] |
| rs58686005 | 0.92[EUR][1000 genomes] |
| rs73033562 | 0.90[EUR][1000 genomes] |
| rs73044393 | 0.89[EUR][1000 genomes] |
| rs73883851 | 0.90[AMR][1000 genomes];0.96[EUR][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 | nsv1012271 | chr3:179806875-180234871 | Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv1007831 | chr3:180162003-180348203 | Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| 3 | nsv536818 | chr3:180162003-180348203 | Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:180221000-180235400 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
| 2 | chr3:180229200-180234600 | Weak transcription | Pancreas | Pancrea |
