Variant report
| Variant | rs1564257 |
|---|---|
| Chromosome Location | chr3:140905177-140905178 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr3:140901647..140903413-chr3:140903803..140906538,2 | K562 | blood: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:33)
| rs_ID | r2[population] |
|---|---|
| rs1010717 | 0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs10470445 | 0.84[EUR][1000 genomes] |
| rs1108693 | 0.83[ASN][1000 genomes] |
| rs1154783 | 0.85[EUR][1000 genomes] |
| rs12494491 | 0.86[EUR][1000 genomes] |
| rs13062081 | 0.90[ASN][1000 genomes] |
| rs13080353 | 0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs13092595 | 0.92[EUR][1000 genomes] |
| rs13092946 | 0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1511382 | 0.87[EUR][1000 genomes] |
| rs1567560 | 0.83[EUR][1000 genomes] |
| rs16851121 | 0.80[EUR][1000 genomes] |
| rs16851123 | 0.80[EUR][1000 genomes] |
| rs1871279 | 0.82[EUR][1000 genomes] |
| rs2048456 | 0.84[EUR][1000 genomes] |
| rs2048457 | 0.80[EUR][1000 genomes] |
| rs2311733 | 0.83[TSI][hapmap] |
| rs34199471 | 0.80[EUR][1000 genomes] |
| rs4308250 | 0.87[CEU][hapmap];0.82[EUR][1000 genomes] |
| rs4683397 | 0.88[EUR][1000 genomes] |
| rs4683566 | 0.86[EUR][1000 genomes] |
| rs4683570 | 0.91[EUR][1000 genomes] |
| rs4683572 | 1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs7632817 | 0.88[EUR][1000 genomes] |
| rs9289621 | 0.80[EUR][1000 genomes] |
| rs9289623 | 0.80[EUR][1000 genomes] |
| rs9289625 | 0.87[CEU][hapmap];0.86[TSI][hapmap] |
| rs9289626 | 0.87[CEU][hapmap] |
| rs9859870 | 0.80[EUR][1000 genomes] |
| rs9860331 | 0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs995783 | 0.88[EUR][1000 genomes] |
| rs9990158 | 0.80[EUR][1000 genomes] |
| rs9990285 | 0.80[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 | nsv877550 | chr3:140867094-140933231 | Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers | Chromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1564257 | XRN1 | cis | parietal | SCAN |
| rs1564257 | MRPS22 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:140898200-140906000 | Weak transcription | Fetal Muscle Trunk | muscle |
