Variant report
| Variant | rs892576 |
|---|---|
| Chromosome Location | chr18:44985973-44985974 |
| 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:18)
| rs_ID | r2[population] |
|---|---|
| rs1036347 | 0.84[AMR][1000 genomes] |
| rs1036348 | 0.94[ASN][1000 genomes] |
| rs11659832 | 0.81[ASN][1000 genomes] |
| rs11659849 | 0.81[ASN][1000 genomes] |
| rs11663270 | 0.81[ASN][1000 genomes] |
| rs12968905 | 0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs1434503 | 0.80[EUR][1000 genomes] |
| rs16953140 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs2000831 | 0.83[AMR][1000 genomes] |
| rs2004310 | 1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs2082651 | 0.81[ASN][1000 genomes] |
| rs4986229 | 0.86[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs7407303 | 0.81[ASN][1000 genomes] |
| rs748509 | 0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7504883 | 0.85[ASN][1000 genomes] |
| rs751393 | 0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs892577 | 0.88[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs9961262 | 0.81[ASN][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 | nsv833641 | chr18:44815063-45020202 | Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionChromatin interactive regionlncRNAmiRNA | 2 gene(s) | inside rSNPs | diseases |
| 2 | nsv517425 | chr18:44983381-44998024 | Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats | Chromatin interactive region | n/a | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs892576 | LOXHD1 | cis | parietal | SCAN |
| rs892576 | PIK3C3 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr18:44980400-44988800 | Weak transcription | H1 Derived Neuronal Progenitor Cultured Cells | ES cell derived |
