Variant report
| Variant | rs17805868 |
|---|---|
| Chromosome Location | chr3:67366936-67366937 |
| 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:25)
| rs_ID | r2[population] |
|---|---|
| rs10510964 | 0.96[ASN][1000 genomes] |
| rs12490292 | 0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs12493000 | 0.96[ASN][1000 genomes] |
| rs1490254 | 0.91[ASN][1000 genomes] |
| rs1490271 | 0.90[CEU][hapmap] |
| rs17046182 | 0.96[ASN][1000 genomes] |
| rs1994610 | 0.96[ASN][1000 genomes] |
| rs2017422 | 0.91[ASN][1000 genomes] |
| rs4856846 | 0.96[ASN][1000 genomes] |
| rs4856847 | 0.96[ASN][1000 genomes] |
| rs57179316 | 0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs61692736 | 0.85[ASN][1000 genomes] |
| rs66509153 | 0.96[ASN][1000 genomes] |
| rs66649021 | 0.94[ASN][1000 genomes] |
| rs66731212 | 0.89[ASN][1000 genomes] |
| rs66955393 | 0.91[ASN][1000 genomes] |
| rs67857762 | 0.96[ASN][1000 genomes] |
| rs72914503 | 0.87[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs72914506 | 0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs7612558 | 0.93[ASN][1000 genomes] |
| rs880985 | 0.84[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs885110 | 0.96[ASN][1000 genomes] |
| rs902323 | 1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs931437 | 0.96[ASN][1000 genomes] |
| rs985344 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1007093 | chr3:67113534-67602973 | Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 3 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17805868 | MITF | cis | parietal | SCAN |
| rs17805868 | SNTN | cis | parietal | SCAN |
| rs17805868 | FAM19A1 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:67362400-67367400 | Weak transcription | H9 Derived Neuron Cultured Cells | ES cell derived |
