Variant report
| Variant | rs11838009 |
|---|---|
| Chromosome Location | chr12:49112874-49112875 |
| allele | A/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:2)
- CpG islands (count:0)
- Chromatin interactive region (count:6)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:2 , 50 per page) page:
1
| No data |
(count:6 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr12:49110692..49113146-chr12:49113655..49115312,2 | K562 | blood: | |
| 2 | chr12:49112523..49114853-chr12:49207159..49208683,2 | MCF-7 | breast: | |
| 3 | chr12:49109260..49113049-chr12:49411417..49414170,4 | K562 | blood: | |
| 4 | chr12:49111500..49113785-chr12:49114304..49115934,2 | MCF-7 | breast: | |
| 5 | chr12:49112410..49114208-chr12:49118844..49121156,2 | K562 | blood: | |
| 6 | chr12:49111079..49113918-chr12:49181891..49183549,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| CCNT1 | TF binding region |
| ENSG00000181929 | Chromatin interaction |
| ENSG00000257660 | Chromatin interaction |
| ENSG00000174233 | Chromatin interaction |
| ENSG00000167535 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs11830884 | 0.93[AFR][1000 genomes] |
| rs11837122 | 1.00[AFR][1000 genomes] |
| rs11837277 | 0.83[AFR][1000 genomes] |
| rs11838289 | 0.90[AFR][1000 genomes] |
| rs11838360 | 0.93[AFR][1000 genomes] |
| rs2898086 | 0.83[AFR][1000 genomes] |
| rs35678179 | 0.89[EUR][1000 genomes] |
| rs57337154 | 0.93[AFR][1000 genomes] |
| rs57454425 | 0.93[AFR][1000 genomes] |
| rs60351852 | 0.93[AFR][1000 genomes] |
| rs61751603 | 0.89[EUR][1000 genomes] |
| rs7297499 | 0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs7312311 | 0.93[AFR][1000 genomes] |
| rs74088105 | 0.83[AFR][1000 genomes] |
| rs74088110 | 0.83[AFR][1000 genomes] |
| rs74088131 | 0.83[AFR][1000 genomes] |
| rs74088137 | 0.93[AFR][1000 genomes] |
| rs74088149 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs74088163 | 1.00[AFR][1000 genomes] |
| rs74088167 | 1.00[AFR][1000 genomes] |
| rs74089369 | 0.83[AFR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv3332169 | chr12:49005807-49150691 | Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 43 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
