Variant report
| Variant | rs325871 |
|---|---|
| Chromosome Location | chr5:41052152-41052153 |
| 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:24)
| rs_ID | r2[population] |
|---|---|
| rs167815 | 0.91[YRI][hapmap] |
| rs170529 | 1.00[CEU][hapmap] |
| rs325853 | 1.00[CEU][hapmap];0.92[YRI][hapmap] |
| rs325856 | 1.00[CEU][hapmap];0.88[EUR][1000 genomes] |
| rs325857 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs325858 | 1.00[CEU][hapmap] |
| rs325859 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs325860 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs325863 | 1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs325864 | 1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs325866 | 1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs325867 | 1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs325868 | 1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs325870 | 1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.88[EUR][1000 genomes] |
| rs325872 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs325873 | 0.99[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs325875 | 1.00[CEU][hapmap] |
| rs325876 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs387699 | 0.82[YRI][hapmap] |
| rs391243 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
| rs618334 | 1.00[YRI][hapmap];0.90[AFR][1000 genomes] |
| rs644800 | 0.81[AFR][1000 genomes] |
| rs648563 | 1.00[YRI][hapmap];0.90[AFR][1000 genomes] |
| rs865093 | 0.87[YRI][hapmap] |
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 | nsv830268 | chr5:40897361-41138366 | Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs325871 | GALNT9 | trans | lymphoblastoid | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:41052000-41052200 | Active TSS | Aorta | Aorta |
