Variant report
| Variant | rs1792500 |
|---|---|
| Chromosome Location | chr11:56659738-56659739 |
| 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:28)
| rs_ID | r2[population] |
|---|---|
| rs11828859 | 1.00[JPT][hapmap] |
| rs12419314 | 0.95[ASN][1000 genomes] |
| rs12421316 | 1.00[JPT][hapmap] |
| rs1613887 | 0.97[ASN][1000 genomes] |
| rs1632332 | 0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs1783444 | 0.97[ASN][1000 genomes] |
| rs1783445 | 0.97[ASN][1000 genomes] |
| rs1783446 | 0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1783447 | 0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1783450 | 0.95[ASN][1000 genomes] |
| rs1783451 | 0.97[ASN][1000 genomes] |
| rs1783459 | 0.96[ASN][1000 genomes] |
| rs1783465 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1792494 | 0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1792495 | 0.97[ASN][1000 genomes] |
| rs1792496 | 0.97[ASN][1000 genomes] |
| rs1792498 | 0.97[ASN][1000 genomes] |
| rs1792499 | 0.97[ASN][1000 genomes] |
| rs1892787 | 0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1938751 | 0.95[ASN][1000 genomes] |
| rs2226850 | 0.95[ASN][1000 genomes] |
| rs2226851 | 0.95[ASN][1000 genomes] |
| rs2374 | 0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4939095 | 0.95[ASN][1000 genomes] |
| rs4939097 | 0.95[ASN][1000 genomes] |
| rs523098 | 0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs56210588 | 0.95[ASN][1000 genomes] |
| rs7930832 | 0.95[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 | nsv468577 | chr11:56503728-56704042 | Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 9 gene(s) | inside rSNPs | diseases |
| 2 | nsv555101 | chr11:56503728-56704042 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 9 gene(s) | inside rSNPs | diseases |
| 3 | nsv469960 | chr11:56605222-56704042 | Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 4 | nsv1045889 | chr11:56624365-56737435 | Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1792500 | OR8J1 | cis | parietal | SCAN |
| rs1792500 | OR8J1 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:56658800-56663000 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
| 2 | chr11:56659400-56659800 | Active TSS | A549 | lung |
