Variant report
| Variant | rs4624524 |
|---|---|
| Chromosome Location | chr3:28738350-28738351 |
| 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:20)
| rs_ID | r2[population] |
|---|---|
| rs10510614 | 0.81[ASN][1000 genomes] |
| rs11718080 | 0.84[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs11925269 | 0.90[ASN][1000 genomes] |
| rs1381393 | 0.84[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs17021806 | 0.90[ASN][1000 genomes] |
| rs4258916 | 0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4315650 | 1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4530489 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs59333989 | 0.90[ASN][1000 genomes] |
| rs61287529 | 0.90[ASN][1000 genomes] |
| rs6549871 | 0.95[ASN][1000 genomes] |
| rs6549874 | 0.84[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs6549878 | 0.84[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs6549880 | 0.84[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs6549881 | 0.84[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs6804117 | 0.84[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73054642 | 0.90[ASN][1000 genomes] |
| rs73054682 | 0.81[ASN][1000 genomes] |
| rs73065090 | 0.80[ASN][1000 genomes] |
| rs9875435 | 0.99[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv3328565 | chr3:27991169-28915035 | Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 28 gene(s) | inside rSNPs | diseases |
| 2 | nsv916364 | chr3:28468275-29146280 | Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 3 | nsv1001920 | chr3:28711075-28788920 | Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | n/a |
| 4 | esv3461677 | chr3:28734924-28744248 | Weak transcription Enhancers | Chromatin interactive region | n/a | inside rSNPs | n/a |
| 5 | esv3461678 | chr3:28734963-28744223 | Enhancers Weak transcription | Chromatin interactive region | n/a | inside rSNPs | n/a |
| 6 | esv3461679 | chr3:28734990-28744180 | Enhancers Weak transcription | Chromatin interactive region | n/a | inside rSNPs | n/a |
| 7 | esv3461680 | chr3:28734990-28744180 | Weak transcription Enhancers | Chromatin interactive region | n/a | inside rSNPs | n/a |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs4624524 | POMZP3 | trans | lymphoblastoid | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:28727200-28739600 | Weak transcription | HSMMtube | muscle |
| 2 | chr3:28737600-28740400 | Weak transcription | Gastric | stomach |
| 3 | chr3:28738200-28738400 | Enhancers | Pancreas | Pancrea |
