Variant report
| Variant | rs6023263 |
|---|---|
| Chromosome Location | chr20:53085544-53085545 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr20:53083713..53086465-chr20:53104546..53106950,2 | MCF-7 | breast: | |
| 2 | chr20:53084969..53087855-chr20:53094880..53097639,2 | MCF-7 | breast: | |
| 3 | chr20:52834058..52838026-chr20:53082960..53086578,4 | MCF-7 | breast: | |
| 4 | chr1:121484545..121485361-chr20:53085285..53086007,2 | MCF-7 | breast: | |
| 5 | chr20:52209472..52211253-chr20:53083989..53086428,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000171940 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs1330017 | 1.00[ASN][1000 genomes] |
| rs16999643 | 0.85[AMR][1000 genomes] |
| rs6014019 | 0.85[AMR][1000 genomes] |
| rs6014026 | 1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6014027 | 1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6023244 | 0.83[AMR][1000 genomes] |
| rs6023251 | 0.83[AMR][1000 genomes] |
| rs6023253 | 0.83[AMR][1000 genomes] |
| rs6023262 | 0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6023265 | 0.99[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6023266 | 1.00[ASN][1000 genomes] |
| rs6023267 | 1.00[ASN][1000 genomes] |
| rs6023268 | 1.00[ASN][1000 genomes] |
| rs6091886 | 0.83[AMR][1000 genomes] |
| rs6091887 | 1.00[ASN][1000 genomes] |
| rs6097987 | 0.83[AMR][1000 genomes] |
| rs6097998 | 0.83[AMR][1000 genomes] |
| rs6097999 | 0.87[AMR][1000 genomes] |
| rs6098002 | 0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs6098003 | 0.99[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7264053 | 0.83[AMR][1000 genomes] |
| rs7271481 | 0.83[AMR][1000 genomes] |
| rs7271579 | 0.81[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv586224 | chr20:52474850-53279490 | Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 338 gene(s) | inside rSNPs | diseases |
| 2 | nsv834011 | chr20:52858341-53086042 | Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS | Chromatin interactive regionlncRNA | 55 gene(s) | inside rSNPs | diseases |
| 3 | nsv834012 | chr20:52921007-53097177 | Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 43 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr20:53084800-53091800 | Weak transcription | Aorta | Aorta |
| 2 | chr20:53085200-53085600 | Weak transcription | Skeletal Muscle Female | skeletal muscle |
