Variant report
| Variant | rs73438030 |
|---|---|
| Chromosome Location | chr6:54487387-54487388 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | POLR2A | chr6:54487265-54487465 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000220773 | TF binding region |
rSNPs within LD-proxies of this variant (count:18)
| rs_ID | r2[population] |
|---|---|
| rs56679790 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs57806075 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs58559999 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs59251337 | 0.86[AFR][1000 genomes] |
| rs60582773 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs6923484 | 0.91[AFR][1000 genomes] |
| rs6928647 | 0.91[AFR][1000 genomes] |
| rs73435986 | 0.88[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73438022 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs73438079 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73438089 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73440018 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs73440046 | 0.93[AFR][1000 genomes] |
| rs73440053 | 0.91[AFR][1000 genomes] |
| rs73440056 | 0.91[AFR][1000 genomes] |
| rs73440059 | 0.91[AFR][1000 genomes] |
| rs73440062 | 0.91[AFR][1000 genomes] |
| rs7740523 | 0.86[AFR][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 | nsv427757 | chr6:54296552-54507210 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 2 | nsv981146 | chr6:54487057-54496676 | Weak transcription Enhancers | TF binding regionChromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:54480000-54489600 | Weak transcription | IMR90 fetal lung fibroblasts Cell Line | lung |
