Variant report
| Variant | rs1840259 |
|---|---|
| Chromosome Location | chr3:84846022-84846023 |
| 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] |
|---|---|
| rs1032507 | 0.87[EUR][1000 genomes] |
| rs1119722 | 0.99[ASN][1000 genomes] |
| rs1146738 | 0.85[EUR][1000 genomes] |
| rs1146740 | 0.85[EUR][1000 genomes] |
| rs1146754 | 0.89[EUR][1000 genomes] |
| rs1146758 | 0.89[EUR][1000 genomes] |
| rs1248821 | 0.85[EUR][1000 genomes] |
| rs1248849 | 0.89[EUR][1000 genomes] |
| rs1691482 | 0.87[EUR][1000 genomes] |
| rs1694958 | 0.81[EUR][1000 genomes] |
| rs1901986 | 0.99[ASN][1000 genomes] |
| rs2647715 | 0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs2647716 | 0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs383685 | 0.85[EUR][1000 genomes] |
| rs395273 | 0.84[EUR][1000 genomes] |
| rs401242 | 0.89[EUR][1000 genomes] |
| rs431816 | 0.87[EUR][1000 genomes] |
| rs624008 | 0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs6548994 | 0.99[ASN][1000 genomes] |
| rs6548995 | 0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs921689 | 0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs980331 | 0.94[ASN][1000 genomes] |
| rs980332 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs980333 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][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 | esv3381298 | chr3:84689266-85030314 | Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv1002058 | chr3:84757044-85389876 | Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 3 | nsv1001316 | chr3:84773522-85071342 | Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 4 | nsv877085 | chr3:84779079-84911212 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 5 | nsv590895 | chr3:84838638-84940927 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:84845200-84856400 | Weak transcription | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
