Variant report
| Variant | rs17627738 |
|---|---|
| Chromosome Location | chr3:60720891-60720892 |
| 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:22)
| rs_ID | r2[population] |
|---|---|
| rs12631593 | 0.81[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs1620446 | 0.81[CHB][hapmap] |
| rs1623091 | 0.81[CHB][hapmap] |
| rs1716709 | 0.81[CHB][hapmap] |
| rs1716714 | 0.81[CHB][hapmap] |
| rs1716717 | 0.81[CHB][hapmap] |
| rs1716718 | 0.81[CHB][hapmap] |
| rs1716721 | 0.81[CHB][hapmap];0.84[CHD][hapmap] |
| rs1716722 | 0.81[CHB][hapmap] |
| rs1716730 | 0.81[CHB][hapmap];0.84[CHD][hapmap] |
| rs1716734 | 0.81[CHB][hapmap] |
| rs1716736 | 0.81[CHB][hapmap] |
| rs1716739 | 0.81[CHB][hapmap] |
| rs1735440 | 0.81[CHB][hapmap] |
| rs1735453 | 0.82[CHD][hapmap] |
| rs1735454 | 0.81[CHB][hapmap];0.84[CHD][hapmap] |
| rs1735467 | 0.81[CHB][hapmap] |
| rs1735468 | 0.90[CHB][hapmap];0.84[CHD][hapmap] |
| rs2142299 | 0.81[CHB][hapmap] |
| rs73103506 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs760314 | 0.81[CHB][hapmap];0.86[JPT][hapmap] |
| rs986687 | 0.81[CHB][hapmap] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv529602 | chr3:60088353-60830769 | Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 2 | nsv998815 | chr3:60495872-60830769 | Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 3 | nsv999828 | chr3:60537384-60785274 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs17627738 | DNASE1L3 | cis | parietal | SCAN |
| rs17627738 | SNTN | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:60716400-60723800 | Weak transcription | Pancreas | Pancrea |
