Variant report
| Variant | rs9291401 |
|---|---|
| Chromosome Location | chr4:19403147-19403148 |
| 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:25)
| rs_ID | r2[population] |
|---|---|
| rs10009149 | 0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10017144 | 0.86[EUR][1000 genomes] |
| rs10017883 | 0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10027111 | 0.90[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs10031839 | 0.90[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs17566280 | 1.00[EUR][1000 genomes] |
| rs28439386 | 1.00[EUR][1000 genomes] |
| rs28674625 | 0.87[ASN][1000 genomes] |
| rs2874685 | 1.00[EUR][1000 genomes] |
| rs28889123 | 1.00[EUR][1000 genomes] |
| rs4425370 | 0.87[ASN][1000 genomes] |
| rs55712235 | 0.88[EUR][1000 genomes] |
| rs55880619 | 1.00[EUR][1000 genomes] |
| rs55964721 | 1.00[EUR][1000 genomes] |
| rs6826516 | 0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6846330 | 0.87[ASN][1000 genomes] |
| rs6846645 | 0.87[ASN][1000 genomes] |
| rs6857775 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73092968 | 0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73249357 | 0.87[ASN][1000 genomes] |
| rs73249365 | 0.87[ASN][1000 genomes] |
| rs73249369 | 0.87[ASN][1000 genomes] |
| rs7686699 | 0.90[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs7691992 | 0.90[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs9997444 | 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 | nsv593785 | chr4:19092157-19521956 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 2 | nsv878732 | chr4:19172031-19660947 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv829872 | chr4:19268282-19432872 | Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 4 | nsv878733 | chr4:19335464-19928602 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs9291401 | DSC3 | trans | lymphoblastoid | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr4:19403000-19403800 | Enhancers | hESC Derived CD56+ Ectoderm Cultured Cells | ES cell derived |
| 2 | chr4:19403000-19404000 | Enhancers | Bone Marrow Derived Cultured Mesenchymal Stem Cells | Bone marrow |
