Variant report
| Variant | rs13415187 |
|---|---|
| Chromosome Location | chr2:21943506-21943507 |
| 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:24)
| rs_ID | r2[population] |
|---|---|
| rs12464757 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs12466911 | 0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs13390535 | 0.95[ASN][1000 genomes] |
| rs13403394 | 0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs13408439 | 0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs13415274 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs13430310 | 0.95[ASN][1000 genomes] |
| rs4082172 | 1.00[AFR][1000 genomes] |
| rs72899865 | 1.00[AFR][1000 genomes] |
| rs72899877 | 1.00[AFR][1000 genomes] |
| rs72899889 | 1.00[AFR][1000 genomes] |
| rs72899891 | 1.00[AFR][1000 genomes] |
| rs72899893 | 1.00[AFR][1000 genomes] |
| rs72899896 | 1.00[AFR][1000 genomes] |
| rs72899898 | 1.00[AFR][1000 genomes] |
| rs72899901 | 1.00[AFR][1000 genomes] |
| rs72901713 | 1.00[AFR][1000 genomes] |
| rs72901720 | 1.00[AFR][1000 genomes] |
| rs72901721 | 1.00[AFR][1000 genomes] |
| rs72901727 | 1.00[AFR][1000 genomes] |
| rs72901729 | 1.00[AFR][1000 genomes] |
| rs72901736 | 1.00[AFR][1000 genomes] |
| rs72901741 | 1.00[AFR][1000 genomes] |
| rs72909023 | 1.00[AFR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1011486 | chr2:21475803-22364002 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv535602 | chr2:21475803-22364002 | Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 3 | esv3406784 | chr2:21805088-22160765 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 4 | nsv581171 | chr2:21897192-21952204 | Enhancers Weak transcription Active TSS | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 5 | nsv430602 | chr2:21910981-22221206 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs13415187 | CTXN2 | trans | lymphoblastoid | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:21940800-21957800 | Weak transcription | Aorta | Aorta |
