Variant report
| Variant | rs17578717 |
|---|---|
| Chromosome Location | chr5:152502310-152502311 |
| allele | G/T |
| 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:29)
| rs_ID | r2[population] |
|---|---|
| rs1123202 | 1.00[ASN][1000 genomes] |
| rs1438935 | 1.00[ASN][1000 genomes] |
| rs17490495 | 1.00[ASN][1000 genomes] |
| rs17490523 | 1.00[ASN][1000 genomes] |
| rs17490621 | 1.00[ASN][1000 genomes] |
| rs17490669 | 1.00[ASN][1000 genomes] |
| rs17491791 | 1.00[ASN][1000 genomes] |
| rs17493016 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17493121 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs17493476 | 0.94[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs17494099 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs17576736 | 0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17578068 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2349021 | 1.00[ASN][1000 genomes] |
| rs4958332 | 1.00[ASN][1000 genomes] |
| rs4958603 | 1.00[ASN][1000 genomes] |
| rs4958605 | 1.00[ASN][1000 genomes] |
| rs4958608 | 1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs67942753 | 0.87[ASN][1000 genomes] |
| rs6886088 | 0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6887416 | 1.00[ASN][1000 genomes] |
| rs72808724 | 0.94[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs73284261 | 1.00[ASN][1000 genomes] |
| rs73284269 | 1.00[ASN][1000 genomes] |
| rs73284276 | 1.00[ASN][1000 genomes] |
| rs73284282 | 1.00[ASN][1000 genomes] |
| rs73284294 | 1.00[ASN][1000 genomes] |
| rs73284298 | 1.00[ASN][1000 genomes] |
| rs998275 | 0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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 | nsv1023676 | chr5:151979253-152925064 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv537927 | chr5:151979253-152925064 | Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 3 | nsv883050 | chr5:152277537-152540026 | Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 4 | nsv949596 | chr5:152343943-152548821 | Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:152501600-152502600 | Enhancers | iPS-18 Cell Line | embryonic stem cell |
| 2 | chr5:152501800-152502600 | Enhancers | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
| 3 | chr5:152501800-152502600 | Enhancers | hESC Derived CD56+ Ectoderm Cultured Cells | ES cell derived |
