Variant report
| Variant | rs4622728 |
|---|---|
| Chromosome Location | chr2:125806843-125806844 |
| 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 | chr2:74425603..74426160-chr2:125806796..125807296,2 | HCT-116 | colon: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000065911 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:12)
| rs_ID | r2[population] |
|---|---|
| rs10173995 | 1.00[ASN][1000 genomes] |
| rs10188831 | 0.83[EUR][1000 genomes] |
| rs11123079 | 0.85[EUR][1000 genomes] |
| rs12328802 | 0.83[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs12619039 | 0.85[EUR][1000 genomes] |
| rs12711702 | 0.85[EUR][1000 genomes] |
| rs13400338 | 0.82[EUR][1000 genomes] |
| rs314889 | 0.82[EUR][1000 genomes] |
| rs314910 | 0.82[EUR][1000 genomes] |
| rs4438483 | 0.85[EUR][1000 genomes] |
| rs4505537 | 0.96[CEU][hapmap] |
| rs6722269 | 0.83[AMR][1000 genomes];0.86[EUR][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 | nsv834361 | chr2:125601081-125810992 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive region | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv874991 | chr2:125692490-125901811 | Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS | TF binding regionCpG islandChromatin interactive region | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv834362 | chr2:125733921-125907451 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive region | 3 gene(s) | inside rSNPs | diseases |
| 4 | nsv431646 | chr2:125780602-126174341 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers | TF binding regionChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs4622728 | WDR33 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
