Variant report
| Variant | rs73490818 |
|---|---|
| Chromosome Location | chr6:62998551-62998552 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:10)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:10 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | E2F4 | chr6:62998504-62998704 | MCF10A-Er-Src | breast: | n/a | n/a |
| 2 | REST | chr6:62998397-62998908 | ECC-1 | luminal epithelium: | n/a | n/a |
| 3 | REST | chr6:62998482-62998893 | MCF-7 | breast: | n/a | n/a |
| 4 | REST | chr6:62998543-62998853 | HL-60 | blood: | n/a | n/a |
| 5 | TEAD4 | chr6:62998513-62998744 | A549 | lung: | n/a | n/a |
| 6 | REST | chr6:62998335-62998918 | ECC-1 | luminal epithelium: | n/a | n/a |
| 7 | REST | chr6:62998406-62998809 | HL-60 | blood: | n/a | n/a |
| 8 | REST | chr6:62998515-62998761 | Hela-S3 | cervix: | n/a | n/a |
| 9 | REST | chr6:62998491-62998766 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 10 | REST | chr6:62998471-62998838 | MCF-7 | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| KHDRBS2 | TF binding region |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs10484617 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs58114783 | 1.00[AMR][1000 genomes] |
| rs73488988 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73489259 | 1.00[AMR][1000 genomes] |
| rs73490828 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73491125 | 1.00[AMR][1000 genomes] |
| rs7749735 | 1.00[AMR][1000 genomes] |
| rs9445960 | 1.00[AMR][1000 genomes] |
| rs9446101 | 1.00[AMR][1000 genomes] |
| rs9446105 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9446185 | 0.87[AFR][1000 genomes] |
| rs9454466 | 1.00[AMR][1000 genomes] |
| rs9454689 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9454714 | 1.00[AMR][1000 genomes] |
| rs9454721 | 1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1017249 | chr6:62906813-63317382 | Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 2 | nsv1020677 | chr6:62911584-63309663 | Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv532025 | chr6:62944349-63571677 | Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 4 | nsv916760 | chr6:62944661-63290986 | Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 5 | nsv1034520 | chr6:62967960-63057406 | Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
