Variant report
| Variant | rs62574701 |
|---|---|
| Chromosome Location | chr9:95582468-95582469 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:4)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:4 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | FOXA2 | chr9:95582247-95582584 | A549 | lung: | n/a | n/a |
| 2 | FOSL2 | chr9:95582149-95582525 | HepG2 | liver: | n/a | n/a |
| 3 | FOSL2 | chr9:95582245-95582575 | HepG2 | liver: | n/a | n/a |
| 4 | FOXA1 | chr9:95582168-95582536 | HepG2 | liver: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ANKRD19P | TF binding region |
| RNU6-714P | TF binding region |
rSNPs within LD-proxies of this variant (count:20)
| rs_ID | r2[population] |
|---|---|
| rs10992511 | 0.89[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs10992514 | 0.89[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs10992515 | 0.89[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs10992528 | 0.85[EUR][1000 genomes] |
| rs1323276 | 0.93[EUR][1000 genomes] |
| rs4595187 | 0.89[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs62572365 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs62572366 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs62572367 | 0.81[AFR][1000 genomes];0.95[EUR][1000 genomes] |
| rs62572368 | 1.00[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs62572369 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs62572372 | 0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs62572374 | 0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs62572381 | 0.93[EUR][1000 genomes] |
| rs62572384 | 0.83[EUR][1000 genomes] |
| rs62572386 | 0.89[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs62572407 | 0.88[EUR][1000 genomes] |
| rs62572408 | 0.88[EUR][1000 genomes] |
| rs72741010 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs72741018 | 0.89[AMR][1000 genomes];0.92[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv831654 | chr9:95542920-95720961 | ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 19 gene(s) | inside rSNPs | diseases |
| 2 | nsv972420 | chr9:95566045-95588965 | Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 3 | nsv893574 | chr9:95580376-95688099 | Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:95572600-95583000 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
| 2 | chr9:95581600-95582800 | Enhancers | Adipose Derived Mesenchymal Stem Cell Cultured Cells | ES cell derived |
