Variant report
| Variant | rs436077 |
|---|---|
| Chromosome Location | chr5:41261105-41261106 |
| 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:21)
| rs_ID | r2[population] |
|---|---|
| rs10058201 | 0.87[EUR][1000 genomes] |
| rs10069139 | 0.90[EUR][1000 genomes] |
| rs10070736 | 0.90[EUR][1000 genomes] |
| rs10155551 | 0.90[EUR][1000 genomes] |
| rs10473238 | 0.90[EUR][1000 genomes] |
| rs10512764 | 0.81[CEU][hapmap] |
| rs11749466 | 1.00[CEU][hapmap];0.90[EUR][1000 genomes] |
| rs11750411 | 0.90[EUR][1000 genomes] |
| rs13359770 | 0.90[EUR][1000 genomes] |
| rs13435916 | 0.90[EUR][1000 genomes] |
| rs16871019 | 1.00[CEU][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes] |
| rs2305060 | 1.00[CEU][hapmap];0.94[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes] |
| rs3805715 | 0.81[CEU][hapmap] |
| rs403624 | 1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs4245977 | 0.90[EUR][1000 genomes] |
| rs4957379 | 0.90[EUR][1000 genomes] |
| rs55638961 | 0.90[EUR][1000 genomes] |
| rs58096029 | 0.83[EUR][1000 genomes] |
| rs6860770 | 0.90[EUR][1000 genomes] |
| rs7443594 | 0.90[EUR][1000 genomes] |
| rs9800055 | 0.90[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 | nsv427717 | chr5:41201377-41369202 | Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 2 | nsv830269 | chr5:41209113-41393536 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs436077 | HCN1 | cis | parietal | SCAN |
| rs436077 | GALNT9 | trans | lymphoblastoid | seeQTL |
| rs436077 | PLCXD3 | cis | cerebellum | SCAN |
| rs436077 | C9 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:41255000-41262400 | Weak transcription | Ovary | ovary |
| 2 | chr5:41261000-41261200 | Enhancers | Fetal Lung | lung |
