Variant report
| Variant | rs13066273 |
|---|---|
| Chromosome Location | chr3:179821130-179821131 |
| allele | A/C |
| 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:31)
| rs_ID | r2[population] |
|---|---|
| rs10513768 | 0.96[ASN][1000 genomes] |
| rs10937018 | 0.99[ASN][1000 genomes] |
| rs12633907 | 0.81[AFR][1000 genomes] |
| rs1402965 | 0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs1522118 | 0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1522122 | 0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs1608071 | 0.92[ASN][1000 genomes] |
| rs1608073 | 0.99[ASN][1000 genomes] |
| rs1608074 | 0.92[ASN][1000 genomes] |
| rs1608075 | 0.92[ASN][1000 genomes] |
| rs1915906 | 0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1915908 | 0.91[ASN][1000 genomes] |
| rs2140078 | 0.92[ASN][1000 genomes] |
| rs2177130 | 0.92[ASN][1000 genomes] |
| rs34582044 | 0.92[ASN][1000 genomes] |
| rs4376038 | 0.90[ASN][1000 genomes] |
| rs4501114 | 0.92[ASN][1000 genomes] |
| rs4855139 | 0.97[ASN][1000 genomes] |
| rs4855140 | 0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs6771471 | 0.92[ASN][1000 genomes] |
| rs6786266 | 0.92[ASN][1000 genomes] |
| rs6806300 | 0.94[ASN][1000 genomes] |
| rs7618051 | 0.90[ASN][1000 genomes] |
| rs7652876 | 0.91[ASN][1000 genomes] |
| rs950198 | 0.96[ASN][1000 genomes] |
| rs9809186 | 0.92[ASN][1000 genomes] |
| rs9833099 | 0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs9840949 | 0.92[ASN][1000 genomes] |
| rs9849935 | 0.83[ASN][1000 genomes] |
| rs9850524 | 0.83[ASN][1000 genomes] |
| rs9863729 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv534210 | chr3:179666123-179899347 | Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | nsv1000756 | chr3:179672703-179827373 | Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 3 | nsv1012880 | chr3:179772283-179835563 | Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 4 | nsv1012271 | chr3:179806875-180234871 | Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:179810600-179843600 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
| 2 | chr3:179821000-179821800 | Active TSS | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
