Variant report
| Variant | rs17030942 |
|---|---|
| Chromosome Location | chr3:53409819-53409820 |
| allele | C/T |
| 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 | chr3:53407217..53410794-chr3:53527396..53529995,4 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000157388 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs11919567 | 1.00[AMR][1000 genomes] |
| rs11920772 | 0.95[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs11921961 | 1.00[AMR][1000 genomes] |
| rs11925433 | 0.88[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs17052997 | 0.95[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs17053116 | 1.00[AMR][1000 genomes] |
| rs58338691 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs58488663 | 1.00[AMR][1000 genomes] |
| rs59254994 | 1.00[AMR][1000 genomes] |
| rs59437060 | 1.00[AMR][1000 genomes] |
| rs60350276 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs60675461 | 1.00[AMR][1000 genomes] |
| rs61299945 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6787817 | 0.84[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs68140464 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72954817 | 0.82[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72954820 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72954825 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72954827 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72954837 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72957594 | 0.88[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs72964389 | 1.00[AMR][1000 genomes] |
| rs72964394 | 1.00[AMR][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 | nsv876801 | chr3:53325905-53467506 | Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive region | 12 gene(s) | inside rSNPs | diseases |
| 2 | nsv876802 | chr3:53325905-53470863 | Strong transcription Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive region | 12 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
