Variant report
| Variant | rs2653828 |
|---|---|
| Chromosome Location | chr4:173851088-173851089 |
| allele | A/G |
| 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] |
|---|---|
| rs17059038 | 1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[ASN][1000 genomes] |
| rs17059041 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs17059052 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs17059062 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs17059068 | 1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
| rs17059073 | 1.00[ASN][1000 genomes] |
| rs2610198 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs2653831 | 1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];0.82[YRI][hapmap] |
| rs28615626 | 1.00[ASN][1000 genomes] |
| rs4572852 | 1.00[CHB][hapmap] |
| rs57813446 | 1.00[ASN][1000 genomes] |
| rs57965890 | 1.00[ASN][1000 genomes] |
| rs73002071 | 0.86[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs73870318 | 1.00[ASN][1000 genomes] |
| rs73870323 | 1.00[ASN][1000 genomes] |
| rs73870330 | 1.00[ASN][1000 genomes] |
| rs73870331 | 1.00[ASN][1000 genomes] |
| rs73870332 | 1.00[ASN][1000 genomes] |
| rs73870333 | 1.00[ASN][1000 genomes] |
| rs7683785 | 1.00[CEU][hapmap] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv948856 | chr4:173388217-173967546 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh | Chromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 2 | nsv949126 | chr4:173466221-174051451 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | Chromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:4)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs2653828 | STAT1 | trans | brain | seeQTL |
| rs2653828 | IFIT3 | trans | brain | seeQTL |
| rs2653828 | HBG1 | trans | brain | seeQTL |
| rs2653828 | HBG2 | trans | brain | seeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
