Variant report
| Variant | rs6064116 |
|---|---|
| Chromosome Location | chr20:53455333-53455334 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr20:53454267..53456115-chr3:133194967..133197666,2 | MCF-7 | breast: | |
| 2 | chr20:53446437..53449220-chr20:53453881..53456288,2 | MCF-7 | breast: | |
| 3 | chr20:53450548..53452502-chr20:53453207..53455561,2 | MCF-7 | breast: | |
| 4 | chr20:53453885..53455479-chr8:102504265..102506779,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000254024 | Chromatin interaction |
| ENSG00000083307 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs1355565 | 0.91[CEU][hapmap];0.83[CHD][hapmap];0.92[GIH][hapmap];0.86[JPT][hapmap];0.84[TSI][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs1512059 | 0.81[EUR][1000 genomes] |
| rs1543077 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs2063518 | 1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2063520 | 0.90[CEU][hapmap];0.87[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs2870370 | 0.90[CEU][hapmap];0.87[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs6023636 | 0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6064119 | 0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs6091986 | 0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs6098293 | 0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs67320717 | 0.95[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs925463 | 0.81[EUR][1000 genomes] |
| rs927653 | 0.82[AMR][1000 genomes];0.82[EUR][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 | nsv1067497 | chr20:53146241-53751820 | Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 66 gene(s) | inside rSNPs | diseases |
| 2 | nsv1064144 | chr20:53175264-53750137 | Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 66 gene(s) | inside rSNPs | diseases |
| 3 | nsv544302 | chr20:53175264-53750137 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 66 gene(s) | inside rSNPs | diseases |
| 4 | nsv1060552 | chr20:53234716-53655115 | Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 54 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
