Variant report
| Variant | rs13075010 |
|---|---|
| Chromosome Location | chr3:56585975-56585976 |
| 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 | chr3:56583673..56586258-chr3:56588811..56591335,4 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000180376 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs10212341 | 0.83[CHB][hapmap];0.95[JPT][hapmap] |
| rs11130525 | 0.83[CHB][hapmap] |
| rs11130526 | 0.83[CHB][hapmap] |
| rs11719707 | 0.83[CHB][hapmap] |
| rs1316647 | 0.83[CHB][hapmap] |
| rs13317989 | 0.83[CHB][hapmap] |
| rs1388256 | 0.83[CHB][hapmap] |
| rs2291498 | 0.83[CHB][hapmap] |
| rs2291500 | 0.83[CHB][hapmap] |
| rs282525 | 0.83[CHB][hapmap] |
| rs282530 | 0.83[CHB][hapmap] |
| rs3172355 | 0.83[CHB][hapmap] |
| rs3732505 | 0.83[CHB][hapmap] |
| rs4681726 | 0.83[CHB][hapmap] |
| rs4681903 | 0.83[CHB][hapmap] |
| rs6556 | 0.83[CHB][hapmap] |
| rs6767903 | 0.81[CHB][hapmap] |
| rs7612464 | 0.83[CHB][hapmap] |
| rs7646924 | 0.80[AMR][1000 genomes];0.89[ASN][1000 genomes] |
| rs9311609 | 0.83[CHB][hapmap] |
| rs953540 | 0.83[CHB][hapmap] |
| rs9847362 | 0.83[CHB][hapmap] |
| rs9871265 | 0.83[CHB][hapmap] |
| rs9872059 | 0.83[CHB][hapmap] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv3347557 | chr3:56466500-56619322 | Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 2 | nsv876817 | chr3:56517253-56649282 | Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs13075010 | CCDC66 | cis | Thyroid | GTEx |
Chromatin state (count:0 , 50 per page) page:
| No data |
