Variant report
| Variant | rs2391133 |
|---|---|
| Chromosome Location | chr7:25504421-25504422 |
| allele | A/G |
| 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:23)
| rs_ID | r2[population] |
|---|---|
| rs10227290 | 0.86[ASN][1000 genomes] |
| rs10266599 | 0.86[ASN][1000 genomes] |
| rs10266720 | 0.86[ASN][1000 genomes] |
| rs10270802 | 0.86[ASN][1000 genomes] |
| rs10271456 | 0.86[ASN][1000 genomes] |
| rs16873862 | 0.87[ASN][1000 genomes] |
| rs17151656 | 0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17251882 | 0.82[EUR][1000 genomes] |
| rs17317200 | 0.88[EUR][1000 genomes] |
| rs2079495 | 0.86[ASN][1000 genomes] |
| rs3857726 | 0.86[ASN][1000 genomes] |
| rs3857727 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs3913611 | 0.85[EUR][1000 genomes] |
| rs4722468 | 0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs55938803 | 0.84[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs62452226 | 0.86[ASN][1000 genomes] |
| rs62452227 | 0.86[ASN][1000 genomes] |
| rs62452229 | 0.86[ASN][1000 genomes] |
| rs6958937 | 1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7782450 | 0.87[ASN][1000 genomes] |
| rs7802027 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs9969299 | 0.86[ASN][1000 genomes] |
| rs9969303 | 0.86[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv606426 | chr7:25254125-25621579 | Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
| 2 | nsv1016813 | chr7:25405859-26150509 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 108 gene(s) | inside rSNPs | diseases |
| 3 | nsv538803 | chr7:25405859-26150509 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 108 gene(s) | inside rSNPs | diseases |
| 4 | nsv1033757 | chr7:25472222-25504421 | Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS | Chromatin interactive region | n/a | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs2391133 | TOMM7 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:25499000-25523800 | Weak transcription | Gastric | stomach |
| 2 | chr7:25503800-25504600 | Enhancers | H9 Derived Neuron Cultured Cells | ES cell derived |
