Variant report
| Variant | rs9828779 |
|---|---|
| Chromosome Location | chr3:24613255-24613256 |
| 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 | chr3:23957479..23960111-chr3:24612993..24615099,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000174748 | Chromatin interaction |
| ENSG00000197885 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs13320162 | 0.86[EUR][1000 genomes] |
| rs28461519 | 0.87[AFR][1000 genomes];0.86[EUR][1000 genomes] |
| rs28576510 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28703587 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs35212657 | 0.86[EUR][1000 genomes] |
| rs73135419 | 0.86[EUR][1000 genomes] |
| rs9818588 | 1.00[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs9826814 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9833836 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9838339 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9850959 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9864136 | 0.86[EUR][1000 genomes] |
| rs9864374 | 0.86[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv834641 | chr3:24465862-24633738 | Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 19 gene(s) | inside rSNPs | diseases |
| 2 | nsv834642 | chr3:24475558-24640593 | Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 19 gene(s) | inside rSNPs | diseases |
| 3 | nsv1012975 | chr3:24500706-24615644 | Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 18 gene(s) | inside rSNPs | diseases |
| 4 | nsv999384 | chr3:24525345-24656873 | Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 18 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
