Variant report
| Variant | rs1580811 |
|---|---|
| Chromosome Location | chr1:197765133-197765134 |
| 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 | chr1:197742918..197744605-chr1:197764250..197765768,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000213047 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs1039286 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs10733088 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs1472498 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs1499594 | 1.00[AMR][1000 genomes] |
| rs1499595 | 1.00[AMR][1000 genomes] |
| rs1747819 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs1775455 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs2221133 | 1.00[AMR][1000 genomes] |
| rs2255086 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs2477062 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs2477064 | 0.85[AFR][1000 genomes] |
| rs2488399 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs2488407 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs3933162 | 1.00[AMR][1000 genomes] |
| rs4628536 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs4915247 | 0.88[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs4915252 | 1.00[AMR][1000 genomes] |
| rs4915571 | 1.00[AMR][1000 genomes] |
| rs6428414 | 1.00[AMR][1000 genomes] |
| rs733876 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs7518074 | 1.00[AMR][1000 genomes] |
| rs942437 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs953508 | 1.00[AMR][1000 genomes] |
| rs957939 | 0.83[AFR][1000 genomes];1.00[AMR][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 | nsv427908 | chr1:197611569-197767362 | ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 12 gene(s) | inside rSNPs | diseases |
| 2 | nsv947369 | chr1:197750549-197778118 | Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr1:197757200-197768000 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
| 2 | chr1:197757200-197769600 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
