Variant report
| Variant | rs12095642 |
|---|---|
| Chromosome Location | chr1:56239016-56239017 |
| allele | A/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:14)
| rs_ID | r2[population] |
|---|---|
| rs11206663 | 0.82[EUR][1000 genomes] |
| rs12564896 | 0.88[ASN][1000 genomes] |
| rs17112735 | 0.88[ASN][1000 genomes] |
| rs17112758 | 0.88[ASN][1000 genomes] |
| rs17112768 | 0.88[ASN][1000 genomes] |
| rs1926909 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2767499 | 0.82[EUR][1000 genomes] |
| rs2767500 | 0.82[EUR][1000 genomes] |
| rs3972660 | 0.83[ASN][1000 genomes] |
| rs57681335 | 0.84[ASN][1000 genomes] |
| rs57986462 | 0.88[ASN][1000 genomes] |
| rs59332651 | 0.88[ASN][1000 genomes] |
| rs59605437 | 0.88[ASN][1000 genomes] |
| rs749330 | 0.83[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv829926 | chr1:56188492-56360745 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | n/a |
| 2 | nsv546304 | chr1:56195659-56240015 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | n/a |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs12095642 | PODN | cis | cerebellum | SCAN |
| rs12095642 | C1orf168 | cis | parietal | SCAN |
| rs12095642 | MYSM1 | cis | cerebellum | SCAN |
| rs12095642 | FGGY | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:56237800-56239600 | Enhancers | Fetal Lung | lung |
