Variant report
| Variant | rs9464126 |
|---|---|
| Chromosome Location | chr6:54596721-54596722 |
| allele | A/C |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:6)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:6 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:54594502..54597427-chr6:54632424..54633945,2 | MCF-7 | breast: | |
| 2 | chr6:54580831..54596896-chr6:54704751..54716103,89 | MCF-7 | breast: | |
| 3 | chr6:54588605..54590894-chr6:54594243..54596836,3 | MCF-7 | breast: | |
| 4 | chr6:54585837..54588493-chr6:54594744..54597239,2 | MCF-7 | breast: | |
| 5 | chr6:54589684..54593022-chr6:54593846..54596999,3 | MCF-7 | breast: | |
| 6 | chr6:54594616..54597518-chr6:54631395..54633965,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000168143 | Chromatin interaction |
| ENSG00000224984 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:12)
| rs_ID | r2[population] |
|---|---|
| rs10948847 | 0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1572593 | 0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs2397167 | 0.81[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs6459019 | 0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs6929307 | 0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs6939756 | 0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs6941518 | 0.81[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs7755817 | 0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs9296766 | 0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs9464129 | 0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs9474957 | 0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs9474980 | 0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv885900 | chr6:54517968-54852462 | Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
| 2 | nsv885901 | chr6:54588069-54635417 | Enhancers Weak transcription Strong transcription Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv885902 | chr6:54588069-54656673 | Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription | TF binding regionChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:54595600-54599800 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
