Variant report
| Variant | rs72979061 |
|---|---|
| Chromosome Location | chr11:106004242-106004243 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:12)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:12 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | CTCF | chr11:106004103-106004880 | SK-N-SH | brain: | n/a | chr11:106004464-106004482 |
| 2 | CTCF | chr11:106004196-106004758 | HCT-116 | colon: | n/a | chr11:106004464-106004482 |
| 3 | RAD21 | chr11:106004240-106004562 | A549 | lung: | n/a | n/a |
| 4 | RAD21 | chr11:106004233-106004711 | ECC-1 | luminal epithelium: | n/a | n/a |
| 5 | RAD21 | chr11:106004173-106004686 | HCT-116 | colon: | n/a | n/a |
| 6 | RAD21 | chr11:106004204-106004562 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 7 | SMC3 | chr11:106004228-106004744 | SK-N-SH | brain: | n/a | n/a |
| 8 | RAD21 | chr11:106004102-106004804 | SK-N-SH | brain: | n/a | n/a |
| 9 | RAD21 | chr11:106004210-106004727 | A549 | lung: | n/a | n/a |
| 10 | RAD21 | chr11:106004234-106004544 | SK-N-SH_RA | brain: | n/a | n/a |
| 11 | ESRRA | chr11:106004004-106004649 | GM12878 | blood: | n/a | chr11:106004412-106004424 chr11:106004412-106004422 chr11:106004408-106004424 chr11:106004412-106004422 |
| 12 | RAD21 | chr11:106004201-106004775 | HCT-116 | colon: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr11:105958412..105959145-chr11:106004183..106004754,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000254580 | TF binding region |
rSNPs within LD-proxies of this variant (count:4)
| rs_ID | r2[population] |
|---|---|
| rs17105049 | 0.85[EUR][1000 genomes] |
| rs6591150 | 0.83[EUR][1000 genomes] |
| rs72977081 | 0.91[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs72979073 | 0.85[EUR][1000 genomes] |
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 | nsv1048381 | chr11:105945117-106561574 | Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 13 gene(s) | inside rSNPs | diseases |
| 2 | nsv898358 | chr11:105999580-106182251 | Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
