Variant report
| Variant | rs72957593 |
|---|---|
| Chromosome Location | chr6:54705529-54705530 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- 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 | chr6:54562066..54563606-chr6:54702788..54705608,2 | MCF-7 | breast: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-HMGCLL1-1 | chr6:54705439-54705653 | XLOC_005749 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:38)
| rs_ID | r2[population] |
|---|---|
| rs10456175 | 0.83[EUR][1000 genomes] |
| rs10948858 | 0.83[EUR][1000 genomes] |
| rs12195610 | 0.83[EUR][1000 genomes] |
| rs12196417 | 0.83[EUR][1000 genomes] |
| rs12197945 | 0.83[EUR][1000 genomes] |
| rs12198696 | 0.83[EUR][1000 genomes] |
| rs12199500 | 0.90[AMR][1000 genomes] |
| rs12203166 | 1.00[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs12203906 | 0.80[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs12203996 | 0.80[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs12204479 | 0.83[EUR][1000 genomes] |
| rs12205593 | 1.00[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs12209581 | 0.83[EUR][1000 genomes] |
| rs12211620 | 0.90[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs12215996 | 0.83[EUR][1000 genomes] |
| rs12216148 | 0.83[EUR][1000 genomes] |
| rs12216371 | 0.83[EUR][1000 genomes] |
| rs28819710 | 0.83[EUR][1000 genomes] |
| rs6904875 | 0.83[EUR][1000 genomes] |
| rs6915978 | 0.83[EUR][1000 genomes] |
| rs72954818 | 1.00[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs72954824 | 1.00[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs72954829 | 0.90[AMR][1000 genomes] |
| rs72954849 | 0.90[AMR][1000 genomes] |
| rs72955751 | 0.83[EUR][1000 genomes] |
| rs72955777 | 0.83[EUR][1000 genomes] |
| rs72955781 | 0.83[EUR][1000 genomes] |
| rs72955782 | 0.83[EUR][1000 genomes] |
| rs72957545 | 0.83[EUR][1000 genomes] |
| rs72957569 | 0.83[EUR][1000 genomes] |
| rs72957574 | 0.83[EUR][1000 genomes] |
| rs7744880 | 0.80[AMR][1000 genomes] |
| rs7745529 | 0.83[EUR][1000 genomes] |
| rs7745648 | 0.83[EUR][1000 genomes] |
| rs9475012 | 0.83[EUR][1000 genomes] |
| rs9475022 | 0.83[EUR][1000 genomes] |
| rs9475023 | 0.83[EUR][1000 genomes] |
| rs9475025 | 0.83[EUR][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 | 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 | esv2763553 | chr6:54687979-54820487 | Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:54705000-54707200 | Weak transcription | HMEC | breast |
