Variant report
| Variant | rs893923 |
|---|---|
| Chromosome Location | chr3:34132701-34132702 |
| allele | G/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:20)
| rs_ID | r2[population] |
|---|---|
| rs1002489 | 0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs12494669 | 0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs12495732 | 0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs13062392 | 0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs1440382 | 0.92[ASN][1000 genomes] |
| rs1440387 | 0.88[CHD][hapmap];0.95[JPT][hapmap] |
| rs1561594 | 0.81[AMR][1000 genomes];0.93[ASN][1000 genomes] |
| rs1583821 | 0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1899082 | 0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs2099753 | 0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs2218183 | 0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs4044970 | 0.94[ASN][1000 genomes] |
| rs4678651 | 0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs7630218 | 0.91[ASN][1000 genomes] |
| rs7631478 | 0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs7633784 | 0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs7641622 | 0.91[ASN][1000 genomes] |
| rs7643151 | 0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs9835388 | 0.90[ASN][1000 genomes] |
| rs9852942 | 0.93[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 | nsv522881 | chr3:33736126-34241686 | Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 21 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs893923 | ITGA9 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:34132600-34133400 | Enhancers | Cortex derived primary cultured neurospheres | brain |
