Variant report
| Variant | rs626858 |
|---|---|
| Chromosome Location | chr6:49992734-49992735 |
| allele | C/T |
| 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 | E2F4 | chr6:49992614-49992777 | MCF10A-Er-Src | breast: | 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:25)
| rs_ID | r2[population] |
|---|---|
| rs10948532 | 1.00[JPT][hapmap] |
| rs12200099 | 1.00[JPT][hapmap] |
| rs13201512 | 1.00[JPT][hapmap] |
| rs13220707 | 1.00[JPT][hapmap] |
| rs1324518 | 1.00[CEU][hapmap] |
| rs1538194 | 1.00[JPT][hapmap] |
| rs1555679 | 0.94[EUR][1000 genomes] |
| rs1575590 | 0.94[EUR][1000 genomes] |
| rs17664238 | 1.00[CEU][hapmap] |
| rs613497 | 1.00[ASN][1000 genomes] |
| rs614058 | 1.00[JPT][hapmap] |
| rs627990 | 1.00[CEU][hapmap];1.00[JPT][hapmap] |
| rs638963 | 1.00[ASN][1000 genomes] |
| rs678584 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6905702 | 1.00[JPT][hapmap] |
| rs73739935 | 1.00[ASN][1000 genomes] |
| rs7772230 | 0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9395549 | 0.94[EUR][1000 genomes] |
| rs945931 | 1.00[JPT][hapmap] |
| rs9473672 | 1.00[JPT][hapmap] |
| rs9473674 | 1.00[JPT][hapmap] |
| rs9473680 | 1.00[JPT][hapmap] |
| rs9473708 | 1.00[ASN][1000 genomes] |
| rs9473714 | 0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9473716 | 0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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 | 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 |
Chromatin state (count:0 , 50 per page) page:
| No data |
