Variant report
| Variant | rs59705785 |
|---|---|
| Chromosome Location | chr3:86042015-86042016 |
| 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-VGLL3-4 | chr3:86041333-86043864 | ENSG00000239519.1 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs12638182 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs17023747 | 0.87[EUR][1000 genomes] |
| rs17023752 | 0.87[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs17023806 | 0.87[EUR][1000 genomes] |
| rs17024547 | 0.87[EUR][1000 genomes] |
| rs17024881 | 0.87[EUR][1000 genomes] |
| rs2324978 | 0.87[EUR][1000 genomes] |
| rs2875498 | 0.87[EUR][1000 genomes] |
| rs4410440 | 0.87[EUR][1000 genomes] |
| rs4410441 | 0.87[EUR][1000 genomes] |
| rs57522321 | 0.87[EUR][1000 genomes] |
| rs58261433 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs59867513 | 0.87[EUR][1000 genomes] |
| rs60543061 | 0.87[EUR][1000 genomes] |
| rs61043144 | 0.87[EUR][1000 genomes] |
| rs61508801 | 0.87[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs61519039 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs6771930 | 0.87[EUR][1000 genomes] |
| rs6809247 | 0.81[ASN][1000 genomes] |
| rs73843565 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73843566 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73843568 | 1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs7613552 | 0.87[EUR][1000 genomes] |
| rs7615721 | 0.87[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv532629 | chr3:85763873-86608579 | Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
| 2 | nsv877111 | chr3:85892098-86044224 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription | Chromatin interactive regionlncRNA | n/a | inside rSNPs | n/a |
| 3 | nsv470727 | chr3:85917289-86044224 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription | Chromatin interactive regionlncRNA | n/a | inside rSNPs | n/a |
| 4 | nsv590913 | chr3:85917289-86044224 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription | Chromatin interactive regionlncRNA | n/a | inside rSNPs | n/a |
| 5 | nsv877112 | chr3:85964737-86083716 | Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:86028000-86043000 | Weak transcription | Brain Inferior Temporal Lobe | brain |
| 2 | chr3:86040400-86064000 | Weak transcription | Brain Hippocampus Middle | brain |
