Variant report
| Variant | rs17009055 |
|---|---|
| Chromosome Location | chr3:21610233-21610234 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | POLR2A | chr3:21610225-21610280 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
(count:2 , 50 per page) page:
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| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ZNF385D | TF binding region |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs17009064 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs17009069 | 1.00[AMR][1000 genomes] |
| rs3911497 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs56165442 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs56330701 | 1.00[AMR][1000 genomes] |
| rs56413975 | 1.00[AMR][1000 genomes] |
| rs58049694 | 1.00[AMR][1000 genomes] |
| rs58497066 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs58525325 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs60086939 | 1.00[AMR][1000 genomes] |
| rs60352620 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs61350442 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6766667 | 1.00[AMR][1000 genomes] |
| rs73819308 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73819309 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73819310 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73819522 | 1.00[AMR][1000 genomes] |
| rs73819961 | 1.00[AMR][1000 genomes] |
| rs73822026 | 1.00[AMR][1000 genomes] |
| rs9831866 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9849669 | 0.88[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv534005 | chr3:21387588-22003293 | Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv1010460 | chr3:21516810-21839871 | Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 3 | esv3426590 | chr3:21593997-21613071 | Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:21603200-21634400 | Weak transcription | Left Ventricle | heart |
| 2 | chr3:21605600-21617400 | Weak transcription | Adipose Derived Mesenchymal Stem Cell Cultured Cells | ES cell derived |
