Variant report
| Variant | rs565202 |
|---|---|
| Chromosome Location | chr2:21297447-21297448 |
| allele | C/T |
| 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:25)
| rs_ID | r2[population] |
|---|---|
| rs11127270 | 0.85[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs11693870 | 0.91[ASN][1000 genomes] |
| rs12052779 | 0.86[ASN][1000 genomes] |
| rs12468735 | 0.84[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs1367113 | 0.91[ASN][1000 genomes] |
| rs1713223 | 0.89[CEU][hapmap] |
| rs1897083 | 0.97[ASN][1000 genomes] |
| rs312957 | 1.00[YRI][hapmap] |
| rs312959 | 1.00[YRI][hapmap] |
| rs4665178 | 0.91[ASN][1000 genomes] |
| rs4665179 | 0.91[ASN][1000 genomes] |
| rs56079819 | 0.94[ASN][1000 genomes] |
| rs563476 | 0.88[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs571468 | 0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs588245 | 0.81[CEU][hapmap] |
| rs594677 | 1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs61539677 | 0.97[ASN][1000 genomes] |
| rs62122515 | 0.95[ASN][1000 genomes] |
| rs62122516 | 0.95[ASN][1000 genomes] |
| rs62122520 | 0.91[ASN][1000 genomes] |
| rs634292 | 0.87[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs664894 | 0.89[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs666126 | 0.87[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs675430 | 0.88[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs754523 | 0.96[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 | nsv873728 | chr2:21250914-21460786 | Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs565202 | ATAD2B | cis | cerebellum | SCAN |
| rs565202 | APOB | cis | Adipose Subcutaneous | GTEx |
| rs565202 | MSGN1 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:21297400-21297600 | Enhancers | HepG2 | liver |
