Variant report
| Variant | rs4490163 |
|---|---|
| Chromosome Location | chr2:37655077-37655078 |
| allele | C/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:26)
| rs_ID | r2[population] |
|---|---|
| rs10165491 | 0.84[ASN][1000 genomes] |
| rs10181043 | 0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs10189370 | 0.83[ASN][1000 genomes] |
| rs1024811 | 0.83[ASN][1000 genomes] |
| rs12475384 | 0.88[ASN][1000 genomes] |
| rs12476654 | 0.94[ASN][1000 genomes] |
| rs12712533 | 0.89[EUR][1000 genomes] |
| rs13002028 | 0.91[ASN][1000 genomes] |
| rs13003908 | 0.83[ASN][1000 genomes] |
| rs13014680 | 0.80[ASN][1000 genomes] |
| rs13019075 | 0.81[EUR][1000 genomes] |
| rs13035644 | 0.90[CHB][hapmap];0.84[JPT][hapmap];0.80[ASN][1000 genomes] |
| rs17020669 | 0.88[ASN][1000 genomes] |
| rs2216116 | 0.82[EUR][1000 genomes] |
| rs2373002 | 0.85[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes] |
| rs34105303 | 0.80[ASN][1000 genomes] |
| rs34652606 | 0.80[ASN][1000 genomes] |
| rs34658454 | 0.80[ASN][1000 genomes] |
| rs4670705 | 0.88[ASN][1000 genomes] |
| rs4670713 | 0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4670719 | 0.83[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs62133308 | 0.83[ASN][1000 genomes] |
| rs6544076 | 0.94[ASN][1000 genomes] |
| rs6732454 | 0.88[ASN][1000 genomes] |
| rs71437580 | 0.81[ASN][1000 genomes] |
| rs7568035 | 0.88[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv833814 | chr2:37643132-37840247 | Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs4490163 | FEZ2 | cis | lymphoblastoid | seeQTL |
| rs4490163 | GEMIN6 | cis | cerebellum | SCAN |
| rs4490163 | QPCT | cis | lymphoblastoid | seeQTL |
| rs4490163 | ATL2 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:37654800-37659000 | ZNF genes & repeats | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
