Variant report
| Variant | rs10832880 |
|---|---|
| Chromosome Location | chr11:18079295-18079296 |
| 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:29)
| rs_ID | r2[population] |
|---|---|
| rs10500831 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs10832881 | 0.81[AFR][1000 genomes] |
| rs10832882 | 0.90[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs11024458 | 0.90[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs11024460 | 0.99[EUR][1000 genomes] |
| rs11024461 | 0.96[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs11024468 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs11024476 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs11024482 | 0.92[EUR][1000 genomes] |
| rs11024484 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs11024485 | 0.92[EUR][1000 genomes] |
| rs11024493 | 0.81[EUR][1000 genomes] |
| rs12363226 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs12364327 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs12792460 | 0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs35447333 | 0.96[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs5790015 | 0.89[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs61882530 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs6486406 | 0.84[AFR][1000 genomes] |
| rs7117439 | 0.92[EUR][1000 genomes] |
| rs7118373 | 0.92[EUR][1000 genomes] |
| rs7131255 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs7131454 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs7929920 | 0.96[EUR][1000 genomes] |
| rs7933259 | 0.96[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs7934091 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs7942794 | 0.92[EUR][1000 genomes] |
| rs7943725 | 0.96[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs7943884 | 0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv949248 | chr11:17791822-18692687 | Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 156 gene(s) | inside rSNPs | diseases |
| 2 | nsv897026 | chr11:17823296-18084878 | Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 12 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10832880 | SAAL1 | cis | lung | GTEx |
| rs10832880 | MRGPRX3 | cis | Esophagus Mucosa | GTEx |
| rs10832880 | SAAL1 | Cis_1M | lymphoblastoid | RTeQTL |
| rs10832880 | SAAL1 | cis | Artery Tibial | GTEx |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:18070800-18102600 | Weak transcription | Brain Hippocampus Middle | brain |
