Variant report
| Variant | rs9473720 |
|---|---|
| Chromosome Location | chr6:49993033-49993034 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:9)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:9 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | STAT3 | chr6:49993021-49993473 | MCF10A-Er-Src | breast: | n/a | n/a |
| 2 | FOS | chr6:49992966-49993428 | MCF10A-Er-Src | breast: | n/a | n/a |
| 3 | FOS | chr6:49992966-49993357 | MCF10A-Er-Src | breast: | n/a | n/a |
| 4 | MYC | chr6:49992952-49993421 | MCF10A-Er-Src | breast: | n/a | n/a |
| 5 | TFAP2A | chr6:49992910-49993440 | Hela-S3 | cervix: | n/a | n/a |
| 6 | REST | chr6:49993009-49993251 | Hela-S3 | cervix: | n/a | n/a |
| 7 | REST | chr6:49992988-49993250 | Hela-S3 | cervix: | n/a | n/a |
| 8 | TCF7L2 | chr6:49992900-49993429 | Hela-S3 | cervix: | n/a | n/a |
| 9 | TFAP2C | chr6:49992876-49993528 | Hela-S3 | cervix: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| DEFB110 | TF binding region |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs13437462 | 1.00[YRI][hapmap] |
| rs9463564 | 1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9463565 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9463568 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9463571 | 1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9473715 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9473717 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9473719 | 1.00[YRI][hapmap] |
| rs9473721 | 1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9473724 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9473734 | 1.00[YRI][hapmap] |
| rs9473741 | 1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9473742 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9885929 | 1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 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 | nsv933942 | chr6:49480550-50004231 | Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 25 gene(s) | inside rSNPs | diseases |
| 2 | nsv5295 | chr6:49955078-50007710 | Enhancers Active TSS Weak transcription Flanking Active TSS | TF binding regionCpG islandChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:49992800-49993800 | Enhancers | Hela-S3 | cervix |
