Variant report
| Variant | rs12527371 |
|---|---|
| Chromosome Location | chr6:132857559-132857560 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:132855902..132859597-chr6:133135974..133139810,3 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000206754 | Chromatin interaction |
| ENSG00000221500 | Chromatin interaction |
| ENSG00000200534 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs17801870 | 1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes] |
| rs1933988 | 0.95[CHD][hapmap];0.81[ASN][1000 genomes] |
| rs2255291 | 0.91[ASN][1000 genomes] |
| rs2255292 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2255304 | 1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2255414 | 0.81[ASN][1000 genomes] |
| rs2788944 | 0.82[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2788945 | 0.82[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2788946 | 0.88[ASN][1000 genomes] |
| rs2788949 | 0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs2788952 | 0.96[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs2840833 | 1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2840834 | 1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs2840837 | 0.83[MEX][hapmap] |
| rs2840840 | 0.96[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs57425922 | 0.96[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs6905672 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.97[GIH][hapmap];0.89[JPT][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes] |
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 | nsv532069 | chr6:132776411-133462292 | Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 90 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs12527371 | VNN3 | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
