Variant report
| Variant | rs2142297 |
|---|---|
| Chromosome Location | chr3:60821730-60821731 |
| 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] |
|---|---|
| rs10510855 | 0.82[EUR][1000 genomes] |
| rs13088848 | 0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs1839068 | 0.87[EUR][1000 genomes] |
| rs1839069 | 0.82[EUR][1000 genomes] |
| rs1947159 | 0.84[EUR][1000 genomes] |
| rs1947160 | 0.84[EUR][1000 genomes] |
| rs2100152 | 0.96[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs2205354 | 0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs2223084 | 0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs2250114 | 0.98[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs2594132 | 0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs2594133 | 0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs2594136 | 0.90[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs2736748 | 0.89[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs2736750 | 0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs2736751 | 0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs2736752 | 0.93[EUR][1000 genomes] |
| rs2736753 | 0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs34696953 | 0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs35871234 | 0.83[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs4974235 | 0.83[EUR][1000 genomes] |
| rs67917562 | 0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 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 | nsv534038 | chr3:60781917-60993082 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 4 | esv2757872 | chr3:60781943-61019003 | ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 5 | esv2759152 | chr3:60781943-61220809 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:60821600-60823800 | Weak transcription | H1 BMP4 Derived Trophoblast Cultured Cells | ES cell derived |
