Variant report
| Variant | rs1678727 |
|---|---|
| Chromosome Location | chr6:38798347-38798348 |
| 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 | chr6:38781296..38783678-chr6:38797945..38799574,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:26)
| rs_ID | r2[population] |
|---|---|
| rs1018437 | 0.84[ASN][1000 genomes] |
| rs1157884 | 0.82[ASN][1000 genomes] |
| rs1630487 | 0.80[ASN][1000 genomes] |
| rs1678640 | 0.91[EUR][1000 genomes] |
| rs1678669 | 0.82[ASN][1000 genomes] |
| rs1678675 | 0.82[ASN][1000 genomes] |
| rs1678717 | 0.92[ASN][1000 genomes] |
| rs1678718 | 0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1678725 | 0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1678742 | 0.82[ASN][1000 genomes] |
| rs1738184 | 0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs1738192 | 0.84[ASN][1000 genomes] |
| rs1738199 | 0.84[ASN][1000 genomes] |
| rs1738203 | 0.92[ASN][1000 genomes] |
| rs1738232 | 0.82[ASN][1000 genomes] |
| rs1738236 | 0.82[ASN][1000 genomes] |
| rs1738238 | 0.87[ASN][1000 genomes] |
| rs1738239 | 0.87[ASN][1000 genomes] |
| rs1738240 | 0.87[ASN][1000 genomes] |
| rs1738241 | 0.85[ASN][1000 genomes] |
| rs1738243 | 0.82[ASN][1000 genomes] |
| rs1738247 | 0.80[ASN][1000 genomes] |
| rs761348 | 0.82[ASN][1000 genomes] |
| rs9296265 | 0.82[ASN][1000 genomes] |
| rs982705 | 0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs984523 | 0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][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 | nsv885817 | chr6:38036420-39019503 | Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 26 gene(s) | inside rSNPs | diseases |
| 2 | nsv830642 | chr6:38645056-38800657 | Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 12 gene(s) | inside rSNPs | diseases |
| 3 | nsv830643 | chr6:38726675-38905589 | Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:38766800-38824400 | Weak transcription | K562 | blood |
| 2 | chr6:38796400-38811600 | Weak transcription | H1 Derived Neuronal Progenitor Cultured Cells | ES cell derived |
