Variant report
| Variant | rs12360419 |
|---|---|
| Chromosome Location | chr10:45825659-45825660 |
| 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:32)
| rs_ID | r2[population] |
|---|---|
| rs10159580 | 0.81[EUR][1000 genomes] |
| rs10793613 | 0.81[EUR][1000 genomes] |
| rs10900195 | 0.81[EUR][1000 genomes] |
| rs10900200 | 0.81[EUR][1000 genomes] |
| rs11239432 | 0.81[EUR][1000 genomes] |
| rs11239434 | 0.80[EUR][1000 genomes] |
| rs11239435 | 0.81[EUR][1000 genomes] |
| rs11239437 | 0.81[EUR][1000 genomes] |
| rs11239452 | 0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs11522532 | 0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs11523407 | 0.83[EUR][1000 genomes] |
| rs11523866 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs12250005 | 0.81[EUR][1000 genomes] |
| rs12268890 | 0.81[EUR][1000 genomes] |
| rs12355722 | 0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs12357069 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs12358110 | 0.81[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs1529828 | 0.81[EUR][1000 genomes] |
| rs1529829 | 0.81[EUR][1000 genomes] |
| rs17521948 | 0.81[EUR][1000 genomes] |
| rs1968475 | 0.82[EUR][1000 genomes] |
| rs28485654 | 0.82[AFR][1000 genomes] |
| rs28570111 | 0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs28688874 | 0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs55963543 | 0.81[EUR][1000 genomes] |
| rs7085353 | 0.81[EUR][1000 genomes] |
| rs72786508 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs72788095 | 0.81[EUR][1000 genomes] |
| rs72788096 | 0.81[EUR][1000 genomes] |
| rs9664826 | 0.80[EUR][1000 genomes] |
| rs9733175 | 0.80[EUR][1000 genomes] |
| rs9733444 | 0.81[EUR][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 | nsv895105 | chr10:45636867-45928822 | Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 13 gene(s) | inside rSNPs | diseases |
| 2 | nsv430166 | chr10:45668894-46148794 | Bivalent Enhancer Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 15 gene(s) | inside rSNPs | diseases |
| 3 | nsv993428 | chr10:45742877-46224333 | Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 19 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs12360419 | OR13A1 | cis | lung | GTEx |
| rs12360419 | ALOX5 | Cis_1M | lymphoblastoid | RTeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr10:45825600-45825800 | Enhancers | K562 | blood |
