Variant report
| Variant | rs59778893 |
|---|---|
| Chromosome Location | chr5:5100800-5100801 |
| 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 | chr3:172313262..172313984-chr5:5100777..5101613,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000223387 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs11959101 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs16874685 | 0.93[AMR][1000 genomes] |
| rs16874686 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs16874715 | 0.88[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs57249853 | 0.82[AMR][1000 genomes] |
| rs57546252 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6555329 | 0.93[AMR][1000 genomes] |
| rs6866197 | 0.93[AMR][1000 genomes] |
| rs6887691 | 0.99[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6898045 | 0.83[AFR][1000 genomes] |
| rs73032456 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73032459 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73032472 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73032478 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73032481 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73049833 | 0.83[AFR][1000 genomes];0.93[AMR][1000 genomes] |
| rs73738308 | 0.82[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1021653 | chr5:4932992-5201887 | Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 18 gene(s) | inside rSNPs | diseases |
| 2 | esv2757980 | chr5:4980876-5184615 | Enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
| 3 | esv2759318 | chr5:4980876-5184615 | Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
| 4 | nsv1024784 | chr5:4980979-5391231 | Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
| 5 | nsv830194 | chr5:5002459-5187667 | Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
