Variant report
| Variant | rs6439656 |
|---|---|
| Chromosome Location | chr3:136486228-136486229 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- 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 | chr3:136486125..136487075-chr3:136732472..136733275,2 | MCF-7 | breast: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-STAG1-4 | chr3:136486167-136486437 | NONHSAT092284 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:11)
| rs_ID | r2[population] |
|---|---|
| rs34992220 | 0.91[ASN][1000 genomes] |
| rs61322732 | 0.92[ASN][1000 genomes] |
| rs61508594 | 0.92[ASN][1000 genomes] |
| rs61790842 | 0.92[ASN][1000 genomes] |
| rs6795227 | 0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6805814 | 0.84[EUR][1000 genomes] |
| rs73230065 | 0.84[EUR][1000 genomes] |
| rs9812541 | 0.89[ASN][1000 genomes] |
| rs9813590 | 0.82[ASN][1000 genomes] |
| rs9853960 | 0.99[ASN][1000 genomes] |
| rs9871160 | 0.93[AFR][1000 genomes];0.85[ASN][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 | nsv877529 | chr3:136364511-136487559 | ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 30 gene(s) | inside rSNPs | diseases |
| 2 | nsv1006737 | chr3:136466188-136530743 | Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 29 gene(s) | inside rSNPs | diseases |
| 3 | esv33758 | chr3:136480745-136492394 | Weak transcription Enhancers ZNF genes & repeats | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | n/a |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6439656 | IL20RB | cis | Artery Tibial | GTEx |
Chromatin state (count:0 , 50 per page) page:
| No data |
