Variant report
| Variant | rs11173313 |
|---|---|
| Chromosome Location | chr12:60462805-60462806 |
| allele | A/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:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr12:60461970..60464211-chr12:60465232..60466795,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:10)
| rs_ID | r2[population] |
|---|---|
| rs11173309 | 0.98[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs11173311 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs12299869 | 0.98[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs12301092 | 0.98[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs12307951 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs12309720 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs12321433 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs59917999 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs73364850 | 1.00[AFR][1000 genomes];0.83[AMR][1000 genomes] |
| rs7954073 | 0.85[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:6 , 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 | nsv869425 | chr12:59746898-60479741 | Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 22 gene(s) | inside rSNPs | diseases |
| 2 | nsv899136 | chr12:60373244-60483607 | Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer | TF binding regionChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 3 | nsv559103 | chr12:60383069-60483607 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription | TF binding regionChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| 4 | nsv1048137 | chr12:60432594-60515455 | Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| 5 | nsv428591 | chr12:60446360-60631044 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 6 | nsv427913 | chr12:60462443-60569344 | Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:60454400-60464000 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
