Variant report
| Variant | rs10780982 |
|---|---|
| Chromosome Location | chr9:73502424-73502425 |
| 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:17)
| rs_ID | r2[population] |
|---|---|
| rs10511991 | 1.00[CHB][hapmap];0.87[JPT][hapmap];0.96[ASN][1000 genomes] |
| rs10868926 | 0.80[AMR][1000 genomes] |
| rs10868927 | 0.85[ASN][1000 genomes] |
| rs10868928 | 0.84[ASN][1000 genomes] |
| rs11142639 | 0.87[AMR][1000 genomes] |
| rs11142642 | 0.83[ASN][1000 genomes] |
| rs1337033 | 0.88[AMR][1000 genomes] |
| rs1832263 | 0.85[ASN][1000 genomes] |
| rs2039642 | 0.95[ASN][1000 genomes] |
| rs2993012 | 0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs3010419 | 0.86[JPT][hapmap] |
| rs3010445 | 0.85[ASN][1000 genomes] |
| rs3010446 | 0.83[ASN][1000 genomes] |
| rs4543603 | 0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs73459240 | 0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7856482 | 1.00[CHB][hapmap];0.90[CHD][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes] |
| rs7868074 | 0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv893441 | chr9:73486034-73594114 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats | TF binding regionChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 2 | nsv818705 | chr9:73500857-73510880 | Enhancers Weak transcription | n/a | n/a | inside rSNPs | diseases |
| 3 | esv3483093 | chr9:73500939-73514808 | Weak transcription Enhancers | n/a | n/a | inside rSNPs | diseases |
| 4 | esv3483094 | chr9:73500939-73514808 | Enhancers Weak transcription | n/a | n/a | inside rSNPs | diseases |
| 5 | nsv442152 | chr9:73502255-73507221 | Enhancers Weak transcription | n/a | n/a | inside rSNPs | diseases |
| 6 | esv3693031 | chr9:73502424-73510880 | Enhancers Weak transcription | n/a | n/a | inside rSNPs | diseases |
| 7 | nsv818706 | chr9:73502424-73510880 | Enhancers Weak transcription | n/a | n/a | inside rSNPs | diseases |
| 8 | nsv516833 | chr9:73502424-73514958 | Weak transcription Enhancers | n/a | n/a | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10780982 | TJP2 | cis | cerebellum | SCAN |
| rs10780982 | C9orf57 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:73498400-73503600 | Weak transcription | HUVEC | blood vessel |
| 2 | chr9:73501800-73503000 | Enhancers | Foreskin Fibroblast Primary Cells skin01 | Skin |
