Variant report
| Variant | rs62424539 |
|---|---|
| Chromosome Location | chr6:133173272-133173273 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:3)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:3 , 50 per page) page:
1
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000112306 | Chromatin interaction |
| ENSG00000206754 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:42)
| rs_ID | r2[population] |
|---|---|
| rs10457595 | 0.84[EUR][1000 genomes] |
| rs10457596 | 0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10484629 | 0.88[ASN][1000 genomes] |
| rs11962883 | 0.88[ASN][1000 genomes] |
| rs11964512 | 0.83[ASN][1000 genomes] |
| rs12198849 | 0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12203977 | 0.91[ASN][1000 genomes] |
| rs12204027 | 0.91[ASN][1000 genomes] |
| rs12211701 | 0.88[ASN][1000 genomes] |
| rs12212934 | 0.89[EUR][1000 genomes] |
| rs1467403 | 0.83[ASN][1000 genomes] |
| rs1467404 | 0.83[ASN][1000 genomes] |
| rs3813347 | 0.88[ASN][1000 genomes] |
| rs56148066 | 0.86[ASN][1000 genomes] |
| rs58832890 | 0.91[ASN][1000 genomes] |
| rs61421874 | 0.91[ASN][1000 genomes] |
| rs62425137 | 0.84[EUR][1000 genomes] |
| rs6569847 | 0.83[ASN][1000 genomes] |
| rs6569848 | 0.83[ASN][1000 genomes] |
| rs6910639 | 0.81[ASN][1000 genomes] |
| rs6912936 | 0.83[ASN][1000 genomes] |
| rs6915168 | 0.91[ASN][1000 genomes] |
| rs6934161 | 0.91[ASN][1000 genomes] |
| rs73554431 | 0.91[ASN][1000 genomes] |
| rs7738071 | 0.80[ASN][1000 genomes] |
| rs7758703 | 0.83[ASN][1000 genomes] |
| rs7761365 | 0.83[ASN][1000 genomes] |
| rs7765224 | 0.83[ASN][1000 genomes] |
| rs7769051 | 0.94[ASN][1000 genomes] |
| rs7770081 | 0.83[ASN][1000 genomes] |
| rs9321367 | 0.83[ASN][1000 genomes] |
| rs9321371 | 0.84[ASN][1000 genomes] |
| rs9399041 | 0.83[ASN][1000 genomes] |
| rs9483514 | 0.86[ASN][1000 genomes] |
| rs9493435 | 0.83[ASN][1000 genomes] |
| rs9493437 | 0.83[ASN][1000 genomes] |
| rs9493438 | 0.83[ASN][1000 genomes] |
| rs9493443 | 0.91[ASN][1000 genomes] |
| rs9493444 | 0.91[ASN][1000 genomes] |
| rs9493445 | 0.91[ASN][1000 genomes] |
| rs9493446 | 0.91[ASN][1000 genomes] |
| rs9493454 | 0.92[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv532069 | chr6:132776411-133462292 | Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 90 gene(s) | inside rSNPs | diseases |
| 2 | nsv1015742 | chr6:132933666-133285852 | Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 71 gene(s) | inside rSNPs | diseases |
| 3 | esv3352085 | chr6:133172917-133173366 | Inactive region | Chromatin interactive region | 2 gene(s) | inside rSNPs | n/a |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs62424539 | C6orf192 | cis | multi-tissue | Pritchard |
| rs62424539 | C6orf192 | Cis_1M | lymphoblastoid | RTeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
