Variant report
| Variant | rs13009919 |
|---|---|
| Chromosome Location | chr2:173020375-173020376 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:2 , 50 per page) page:
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| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000188825 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs10930521 | 0.91[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs12466775 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs12468831 | 0.81[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs12692981 | 0.81[CEU][hapmap];1.00[GIH][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes] |
| rs13010989 | 0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs13015819 | 0.84[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs13390758 | 0.82[EUR][1000 genomes] |
| rs2054831 | 1.00[JPT][hapmap] |
| rs2357318 | 0.81[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs2884155 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs34158453 | 0.84[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs35412286 | 0.84[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs35547635 | 0.84[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs7582678 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs7597273 | 1.00[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv875413 | chr2:173009413-173097343 | Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription | TF binding regionCpG islandChromatin interactive region | 4 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs13009919 | OLA1 | cis | cerebellum | SCAN |
| rs13009919 | MAP4 | trans | parietal | SCAN |
| rs13009919 | G6PC2 | cis | parietal | SCAN |
| rs13009919 | DHRS9 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:173020200-173020400 | Bivalent Enhancer | Mesenchymal Stem Cell Derived Adipocyte Cultured Cells | ES cell derived |
