Variant report
| Variant | rs2154346 |
|---|---|
| Chromosome Location | chr6:48842605-48842606 |
| allele | A/G |
| 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:22)
| rs_ID | r2[population] |
|---|---|
| rs12664992 | 0.92[ASN][1000 genomes] |
| rs1317061 | 0.92[ASN][1000 genomes] |
| rs13205302 | 0.92[ASN][1000 genomes] |
| rs1938174 | 0.90[ASN][1000 genomes] |
| rs1938220 | 0.91[ASN][1000 genomes] |
| rs2186208 | 0.90[ASN][1000 genomes] |
| rs2396888 | 0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[ASN][1000 genomes] |
| rs28593678 | 0.90[ASN][1000 genomes] |
| rs4379291 | 0.90[ASN][1000 genomes] |
| rs4715106 | 0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62413160 | 0.90[ASN][1000 genomes] |
| rs62413163 | 0.92[ASN][1000 genomes] |
| rs9357583 | 0.90[ASN][1000 genomes] |
| rs9357584 | 0.92[ASN][1000 genomes] |
| rs9357585 | 0.80[AFR][1000 genomes];0.85[ASN][1000 genomes] |
| rs9369818 | 0.90[ASN][1000 genomes] |
| rs9369821 | 0.80[AFR][1000 genomes];0.86[ASN][1000 genomes] |
| rs9381704 | 0.90[ASN][1000 genomes] |
| rs9395413 | 0.92[ASN][1000 genomes] |
| rs9395414 | 0.92[ASN][1000 genomes] |
| rs9395417 | 0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9395420 | 0.94[ASN][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 | nsv949690 | chr6:48595821-49289855 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv603037 | chr6:48804862-48995221 | Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 3 | nsv5292 | chr6:48837853-48884078 | Enhancers Weak transcription | n/a | n/a | inside rSNPs | n/a |
| 4 | esv12249 | chr6:48840995-48846579 | Weak transcription | n/a | n/a | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:48832200-48944000 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
