Variant report
| Variant | rs2820532 |
|---|---|
| Chromosome Location | chr1:71126822-71126823 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-PTGER3-9 | chr1:71126340-71126948 | NONHSAT003863 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs12073510 | 0.98[ASN][1000 genomes] |
| rs1334995 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.95[TSI][hapmap] |
| rs1932057 | 0.81[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs1932061 | 0.87[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs2152125 | 0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs2263634 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs2782762 | 1.00[CHB][hapmap];0.93[CHD][hapmap];0.89[ASN][1000 genomes] |
| rs2782763 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs2782764 | 0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs2782808 | 0.88[AMR][1000 genomes];0.81[EUR][1000 genomes] |
| rs2820529 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs2992053 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs2992054 | 0.88[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs61778683 | 0.98[ASN][1000 genomes] |
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 | nsv871024 | chr1:71088106-71169865 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv871703 | chr1:71093805-71127061 | Enhancers Weak transcription Bivalent Enhancer Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs2820532 | TNNI3K | cis | parietal | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
