Variant report
| Variant | rs12293171 |
|---|---|
| Chromosome Location | chr11:63128098-63128099 |
| allele | C/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:27)
| rs_ID | r2[population] |
|---|---|
| rs10750998 | 0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs11605137 | 0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1193786 | 0.89[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1193787 | 0.89[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs12283500 | 0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1404608 | 0.81[EUR][1000 genomes] |
| rs1790226 | 0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs2958546 | 0.89[ASN][1000 genomes] |
| rs4085831 | 0.85[AFR][1000 genomes] |
| rs4121881 | 0.93[ASN][1000 genomes] |
| rs471044 | 0.87[ASN][1000 genomes] |
| rs488803 | 0.95[ASN][1000 genomes] |
| rs494608 | 0.90[ASN][1000 genomes] |
| rs4963405 | 0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs499003 | 0.86[ASN][1000 genomes] |
| rs502642 | 0.81[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs510547 | 0.90[ASN][1000 genomes] |
| rs511480 | 0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs516536 | 0.92[ASN][1000 genomes] |
| rs517655 | 0.95[ASN][1000 genomes] |
| rs556730 | 0.90[ASN][1000 genomes] |
| rs558472 | 0.87[ASN][1000 genomes] |
| rs563948 | 0.88[ASN][1000 genomes] |
| rs564917 | 0.89[ASN][1000 genomes] |
| rs566456 | 0.93[ASN][1000 genomes] |
| rs688999 | 0.86[ASN][1000 genomes] |
| rs7130728 | 0.81[EUR][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 | nsv1051171 | chr11:62987064-63835715 | Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 100 gene(s) | inside rSNPs | diseases |
| 2 | nsv1053585 | chr11:63057767-63180308 | Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 3 | nsv555178 | chr11:63078742-63197930 | Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs12293171 | SLC22A10 | cis | Esophagus Muscularis | GTEx |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:63127600-63128600 | Weak transcription | Mesenchymal Stem Cell Derived Adipocyte Cultured Cells | ES cell derived |
