Variant report
| Variant | rs6440428 |
|---|---|
| Chromosome Location | chr3:146101723-146101724 |
| 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:35)
| rs_ID | r2[population] |
|---|---|
| rs1018271 | 0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs1033116 | 0.86[ASN][1000 genomes] |
| rs10935631 | 0.84[JPT][hapmap] |
| rs10935632 | 0.84[JPT][hapmap] |
| rs12485655 | 0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs12487546 | 0.84[JPT][hapmap] |
| rs12494817 | 0.86[ASN][1000 genomes] |
| rs12495507 | 0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs13068178 | 0.84[JPT][hapmap] |
| rs13088225 | 0.82[JPT][hapmap] |
| rs13090489 | 0.83[JPT][hapmap] |
| rs1403641 | 0.83[JPT][hapmap] |
| rs1403645 | 0.84[JPT][hapmap] |
| rs1512077 | 0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs1523336 | 0.89[JPT][hapmap] |
| rs1608392 | 0.84[JPT][hapmap] |
| rs1858387 | 0.93[AFR][1000 genomes];0.88[ASN][1000 genomes] |
| rs2137227 | 0.87[ASN][1000 genomes] |
| rs2137228 | 0.86[ASN][1000 genomes] |
| rs2137229 | 0.87[ASN][1000 genomes] |
| rs2867086 | 0.87[ASN][1000 genomes] |
| rs2867087 | 0.88[ASN][1000 genomes] |
| rs4234358 | 0.84[JPT][hapmap] |
| rs4355250 | 0.84[JPT][hapmap] |
| rs4553948 | 0.86[ASN][1000 genomes] |
| rs4572737 | 0.83[JPT][hapmap] |
| rs4681119 | 0.84[JPT][hapmap] |
| rs4681317 | 0.86[ASN][1000 genomes] |
| rs6767156 | 0.84[JPT][hapmap] |
| rs6772169 | 0.85[EUR][1000 genomes] |
| rs7642687 | 0.86[ASN][1000 genomes] |
| rs7645939 | 0.84[JPT][hapmap] |
| rs7653701 | 0.83[JPT][hapmap] |
| rs907491 | 0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs9842818 | 1.00[CHB][hapmap] |
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 | nsv536759 | chr3:146087689-146123589 | Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 2 | nsv1011893 | chr3:146090110-146125010 | Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 3 | nsv877617 | chr3:146096182-146172109 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 4 | nsv877618 | chr3:146096182-146192324 | Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:146093000-146104800 | Weak transcription | Fetal Lung | lung |
| 2 | chr3:146100800-146112600 | Weak transcription | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
| 3 | chr3:146101600-146111800 | Weak transcription | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
