Variant report
| Variant | rs13045683 |
|---|---|
| Chromosome Location | chr20:52855507-52855508 |
| allele | A/C |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:7)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:7 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr20:52854512..52856527-chr20:52861978..52864576,3 | MCF-7 | breast: | |
| 2 | chr20:52853983..52856679-chr20:52866149..52869118,2 | MCF-7 | breast: | |
| 3 | chr20:52853706..52856539-chr20:52873064..52874754,2 | MCF-7 | breast: | |
| 4 | chr20:52855219..52857176-chr20:52882201..52884210,2 | MCF-7 | breast: | |
| 5 | chr20:52855018..52855707-chr9:90632070..90632689,2 | MCF-7 | breast: | |
| 6 | chr20:52852456..52856671-chr20:52869199..52873917,7 | MCF-7 | breast: | |
| 7 | chr20:52851637..52853511-chr20:52855095..52857097,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:19)
| rs_ID | r2[population] |
|---|---|
| rs13039589 | 0.82[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs13039601 | 0.84[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs13042527 | 0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs13045276 | 0.84[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs1477725 | 0.88[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs16999299 | 0.91[TSI][hapmap] |
| rs17223034 | 0.83[CEU][hapmap] |
| rs1964861 | 1.00[CEU][hapmap];0.87[EUR][1000 genomes] |
| rs2023531 | 0.89[CEU][hapmap];1.00[GIH][hapmap];0.83[EUR][1000 genomes] |
| rs28404865 | 0.89[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs28435070 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28526259 | 0.87[EUR][1000 genomes] |
| rs28676447 | 1.00[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs28707344 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28795767 | 0.82[EUR][1000 genomes] |
| rs292129 | 0.81[EUR][1000 genomes] |
| rs6013946 | 0.84[EUR][1000 genomes] |
| rs6023080 | 0.89[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes] |
| rs6023083 | 0.88[CEU][hapmap];0.84[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 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 | nsv834010 | chr20:52759824-52932939 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 119 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr20:52855000-52856000 | Enhancers | Fetal Lung | lung |
