Variant report
| Variant | rs6864802 |
|---|---|
| Chromosome Location | chr5:52809884-52809885 |
| allele | C/T |
| 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:32)
| rs_ID | r2[population] |
|---|---|
| rs10050519 | 0.80[AFR][1000 genomes] |
| rs11739076 | 0.84[ASN][1000 genomes] |
| rs11742590 | 0.86[ASN][1000 genomes] |
| rs11951062 | 0.86[ASN][1000 genomes] |
| rs13158446 | 0.86[ASN][1000 genomes] |
| rs1345811 | 0.85[AFR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1363965 | 0.85[AFR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1363973 | 0.85[AFR][1000 genomes];0.83[ASN][1000 genomes] |
| rs1423562 | 0.85[ASN][1000 genomes] |
| rs1582554 | 0.80[AFR][1000 genomes] |
| rs1593051 | 0.80[AFR][1000 genomes] |
| rs1593052 | 0.80[AFR][1000 genomes] |
| rs1593054 | 0.82[AFR][1000 genomes] |
| rs1593055 | 0.86[ASN][1000 genomes] |
| rs1833887 | 0.86[ASN][1000 genomes] |
| rs1895442 | 0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs2216718 | 0.86[ASN][1000 genomes] |
| rs3909459 | 0.80[AFR][1000 genomes] |
| rs62370545 | 0.80[AFR][1000 genomes] |
| rs6450141 | 0.85[AFR][1000 genomes];0.83[ASN][1000 genomes] |
| rs6872463 | 0.80[AFR][1000 genomes] |
| rs6880712 | 0.80[AFR][1000 genomes] |
| rs6886118 | 0.82[AFR][1000 genomes] |
| rs6896666 | 0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs7703235 | 0.86[ASN][1000 genomes] |
| rs7706455 | 0.86[ASN][1000 genomes] |
| rs7707608 | 0.86[ASN][1000 genomes] |
| rs7709405 | 0.84[ASN][1000 genomes] |
| rs7723495 | 0.86[YRI][hapmap] |
| rs7731038 | 0.82[AFR][1000 genomes] |
| rs7736891 | 0.83[ASN][1000 genomes] |
| rs7737214 | 0.86[ASN][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 | esv2752745 | chr5:52422063-53343529 | Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 22 gene(s) | inside rSNPs | diseases |
| 2 | nsv1032632 | chr5:52667145-53655624 | Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 29 gene(s) | inside rSNPs | diseases |
| 3 | nsv880868 | chr5:52799618-53002783 | Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:52809200-52833600 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
| 2 | chr5:52809800-52810200 | Enhancers | HepG2 | liver |
