Variant report
| Variant | rs346452 |
|---|---|
| Chromosome Location | chr18:39940966-39940967 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-PIK3C3-6 | chr18:39940745-39941040 | NONHSAT059073 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs11082276 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs2053517 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs2336239 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs346195 | 0.80[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs346211 | 0.80[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs346216 | 0.83[ASN][1000 genomes] |
| rs346219 | 0.81[ASN][1000 genomes] |
| rs346221 | 0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs346229 | 0.81[ASN][1000 genomes] |
| rs346230 | 0.80[AMR][1000 genomes];0.83[ASN][1000 genomes] |
| rs346262 | 0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs346440 | 0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs346445 | 0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs346446 | 0.85[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs346448 | 0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs346449 | 0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs346450 | 0.85[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs346451 | 0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs346455 | 0.86[EUR][1000 genomes] |
| rs365539 | 0.89[EUR][1000 genomes] |
| rs369305 | 0.85[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs379604 | 0.86[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs394078 | 0.80[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs8093861 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[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 | nsv949609 | chr18:39126941-40070286 | Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv1059409 | chr18:39711099-40139446 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 3 | esv2760486 | chr18:39937192-39943193 | Enhancers Weak transcription | lncRNA | n/a | inside rSNPs | n/a |
| 4 | nsv909572 | chr18:39938510-40064000 | Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
Variant related diseases (count:1)
| Disease | PMID | Source |
|---|---|---|
| Periodontitis (PAL4Q3) | 24024966 | GWAS catalog |
Chromatin state (count:0 , 50 per page) page:
| No data |
