Variant report
| Variant | rs7672539 |
|---|---|
| Chromosome Location | chr4:166473441-166473442 |
| 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 | STAT3 | chr4:166473383-166473563 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000248327 | TF binding region |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs10011247 | 0.93[ASN][1000 genomes] |
| rs10017098 | 0.94[ASN][1000 genomes] |
| rs12511070 | 0.92[ASN][1000 genomes] |
| rs1320226 | 0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs13340246 | 0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1914837 | 0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1914839 | 0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs2139209 | 1.00[ASW][hapmap];1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs28653384 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs4096262 | 0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs6536920 | 0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs6830986 | 0.94[ASN][1000 genomes] |
| rs6853763 | 0.94[ASN][1000 genomes] |
| rs7695127 | 0.86[ASN][1000 genomes] |
| rs7697374 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs939078 | 0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs9990899 | 0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[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 | nsv508327 | chr4:166424440-166475679 | Weak transcription Enhancers Flanking Active TSS Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 2 | nsv596052 | chr4:166454826-166488615 | Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7672539 | CPE | cis | cerebellum | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
