Variant report
| Variant | rs12656922 |
|---|---|
| Chromosome Location | chr5:116808398-116808399 |
| allele | C/T |
| 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 | chr5:116800476..116802026-chr5:116807043..116809847,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs12652595 | 0.94[ASN][1000 genomes] |
| rs12655647 | 0.81[AMR][1000 genomes] |
| rs12657924 | 0.81[AMR][1000 genomes] |
| rs17141696 | 0.81[AMR][1000 genomes] |
| rs17141732 | 0.81[AMR][1000 genomes] |
| rs17141753 | 0.87[AMR][1000 genomes] |
| rs17141756 | 0.81[AMR][1000 genomes] |
| rs17141763 | 0.81[AMR][1000 genomes] |
| rs17141806 | 1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[AMR][1000 genomes] |
| rs17141815 | 0.96[ASN][1000 genomes] |
| rs2560518 | 0.86[CHB][hapmap] |
| rs2624569 | 0.85[CHB][hapmap] |
| rs56325279 | 0.96[ASN][1000 genomes] |
| rs56871737 | 0.96[ASN][1000 genomes] |
| rs62378227 | 0.81[AMR][1000 genomes] |
| rs62378228 | 0.81[AMR][1000 genomes] |
| rs62378248 | 0.87[AMR][1000 genomes] |
| rs62378259 | 0.87[AMR][1000 genomes] |
| rs62380064 | 0.87[AMR][1000 genomes] |
| rs62380096 | 0.96[ASN][1000 genomes] |
| rs62380101 | 0.84[ASN][1000 genomes] |
| rs62380128 | 1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62380129 | 0.93[AMR][1000 genomes] |
| rs6886520 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs7726548 | 1.00[CHB][hapmap] |
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 | nsv830457 | chr5:116724777-116875060 | Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 2 | nsv882756 | chr5:116783660-116905052 | Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:116807800-116809000 | Weak transcription | Brain Germinal Matrix | brain |
| 2 | chr5:116808000-116808800 | Enhancers | H9 Derived Neuron Cultured Cells | ES cell derived |
