Variant report
| Variant | rs349885 |
|---|---|
| Chromosome Location | chr12:62314921-62314922 |
| 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:20)
| rs_ID | r2[population] |
|---|---|
| rs11174249 | 0.89[CEU][hapmap];0.94[TSI][hapmap] |
| rs1920706 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap] |
| rs2582333 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap] |
| rs2582335 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap] |
| rs349873 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs349875 | 0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs349883 | 1.00[CHB][hapmap];0.81[AFR][1000 genomes];1.00[ASN][1000 genomes] |
| rs349884 | 0.90[ASN][1000 genomes] |
| rs349887 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap] |
| rs349888 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs699558 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs851903 | 1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.83[MKK][hapmap] |
| rs851905 | 1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes] |
| rs851906 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs851908 | 1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs851909 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs851910 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs851911 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs851914 | 1.00[ASN][1000 genomes] |
| rs969173 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1039741 | chr12:62046850-62491052 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs349885 | KIF5A | cis | parietal | SCAN |
| rs349885 | CNPY2 | cis | cerebellum | SCAN |
| rs349885 | NXPH4 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:62313000-62315000 | Enhancers | Liver | Liver |
