Variant report
| Variant | rs6049623 |
|---|---|
| Chromosome Location | chr20:24342338-24342339 |
| allele | A/C |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr20:24337993..24340100-chr20:24340194..24343622,3 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:26)
| rs_ID | r2[population] |
|---|---|
| rs1016589 | 0.83[AMR][1000 genomes] |
| rs1474733 | 0.95[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs1474734 | 0.95[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs1474735 | 1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1540912 | 0.93[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs1540913 | 0.91[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs2143508 | 0.95[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs2206649 | 0.81[AMR][1000 genomes] |
| rs2386706 | 0.81[AMR][1000 genomes] |
| rs6036744 | 0.81[AMR][1000 genomes] |
| rs6036746 | 0.90[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs6036747 | 0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs6036748 | 0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs6036749 | 0.97[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs6036751 | 0.93[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs6036753 | 0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs6049617 | 0.81[AMR][1000 genomes] |
| rs6049622 | 0.97[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs6049624 | 0.97[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs6049631 | 0.93[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs6083506 | 0.93[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs6114672 | 0.95[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs73610791 | 0.80[ASN][1000 genomes] |
| rs73610792 | 0.80[ASN][1000 genomes] |
| rs878289 | 0.81[AMR][1000 genomes] |
| rs926608 | 0.81[AMR][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 | nsv9793 | chr20:23939613-24734850 | Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 18 gene(s) | inside rSNPs | diseases |
| 2 | nsv833945 | chr20:24163437-24349462 | Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers | TF binding regionChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | nsv1058146 | chr20:24210196-24531087 | Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 4 | nsv833946 | chr20:24320375-24490702 | Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr20:24340400-24343400 | Weak transcription | Fetal Brain Male | brain |
| 2 | chr20:24341800-24343800 | ZNF genes & repeats | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
