Variant report
| Variant | rs538505 |
|---|---|
| Chromosome Location | chr15:53487760-53487761 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr15:53072484..53073442-chr15:53487582..53488375,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000169856 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs17545973 | 0.81[EUR][1000 genomes] |
| rs34754696 | 0.81[EUR][1000 genomes] |
| rs473249 | 0.97[ASN][1000 genomes] |
| rs518127 | 0.89[ASN][1000 genomes] |
| rs525096 | 0.97[ASN][1000 genomes] |
| rs550813 | 0.92[ASN][1000 genomes] |
| rs551787 | 0.89[ASN][1000 genomes] |
| rs578363 | 0.89[ASN][1000 genomes] |
| rs584758 | 0.87[CEU][hapmap];0.87[TSI][hapmap] |
| rs689771 | 0.97[ASN][1000 genomes] |
| rs689856 | 0.89[ASN][1000 genomes] |
| rs689991 | 0.92[CEU][hapmap] |
| rs690013 | 0.92[ASN][1000 genomes] |
| rs690050 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs7169933 | 0.82[ASN][1000 genomes] |
| rs72733292 | 0.81[EUR][1000 genomes] |
| rs8031971 | 0.89[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv3343986 | chr15:53284440-53571936 | Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 2 | nsv1037630 | chr15:53324645-53708925 | Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 3 | nsv1051634 | chr15:53459129-53565627 | Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs538505 | MAPK6 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
