Variant report
| Variant | rs517562 |
|---|---|
| Chromosome Location | chr15:54691556-54691557 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs12102026 | 0.92[AFR][1000 genomes] |
| rs12442840 | 0.91[CEU][hapmap] |
| rs12916498 | 0.95[CEU][hapmap];0.86[AMR][1000 genomes] |
| rs28440101 | 0.84[AFR][1000 genomes] |
| rs28489023 | 0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs28837800 | 0.95[AFR][1000 genomes] |
| rs28866807 | 0.91[AFR][1000 genomes] |
| rs497723 | 0.95[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs500198 | 1.00[CEU][hapmap] |
| rs500853 | 0.84[ASN][1000 genomes] |
| rs501022 | 0.86[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs547426 | 0.95[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs569024 | 0.91[CEU][hapmap];1.00[YRI][hapmap] |
| rs572886 | 1.00[YRI][hapmap] |
| rs573320 | 0.90[CEU][hapmap];1.00[YRI][hapmap] |
| rs573565 | 0.95[CEU][hapmap] |
| rs580558 | 0.95[CEU][hapmap];0.83[YRI][hapmap] |
| rs6493679 | 0.89[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs7170707 | 1.00[YRI][hapmap];0.89[AFR][1000 genomes] |
| rs8042489 | 0.84[YRI][hapmap] |
| rs9920417 | 1.00[YRI][hapmap];0.87[AFR][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 | nsv817539 | chr15:54132584-55095235 | Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv904230 | chr15:54685463-54779312 | Enhancers Weak transcription ZNF genes & repeats | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv457150 | chr15:54685463-54787358 | Weak transcription Enhancers ZNF genes & repeats | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 4 | nsv569501 | chr15:54685463-54787358 | Weak transcription Enhancers ZNF genes & repeats | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr15:54685600-54694800 | Weak transcription | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
