Variant report
| Variant | rs7873462 |
|---|---|
| Chromosome Location | chr9:105281458-105281459 |
| 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 | chr9:105274189..105276621-chr9:105279783..105281855,2 | K562 | blood: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs10512298 | 0.86[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs10512299 | 0.81[CHD][hapmap] |
| rs10990131 | 0.89[ASN][1000 genomes] |
| rs10990132 | 0.91[ASN][1000 genomes] |
| rs12004032 | 0.89[CEU][hapmap];0.92[EUR][1000 genomes] |
| rs1946334 | 0.88[ASN][1000 genomes] |
| rs2068258 | 0.91[ASN][1000 genomes] |
| rs4743553 | 0.82[EUR][1000 genomes] |
| rs6479116 | 0.87[ASN][1000 genomes] |
| rs7029589 | 0.89[EUR][1000 genomes] |
| rs7032196 | 0.84[ASN][1000 genomes] |
| rs7042651 | 0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7044642 | 0.83[ASN][1000 genomes] |
| rs73510672 | 0.91[ASN][1000 genomes] |
| rs7862593 | 0.91[ASN][1000 genomes] |
| rs7871339 | 0.91[ASN][1000 genomes] |
| rs7873568 | 0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv893650 | chr9:105198550-105292037 | Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 2 | nsv1040886 | chr9:105246682-105296385 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 3 | nsv1055040 | chr9:105264905-105355578 | Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7873462 | FKTN | cis | parietal | SCAN |
| rs7873462 | TEX10 | cis | cerebellum | SCAN |
| rs7873462 | XPA | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:105281000-105283400 | Weak transcription | Pancreatic Islets | Pancreatic Islet |
