Variant report
| Variant | rs12299859 |
|---|---|
| Chromosome Location | chr12:29241268-29241269 |
| 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 | chr12:29241262..29242110-chr12:29395220..29395818,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:13)
| rs_ID | r2[population] |
|---|---|
| rs10843322 | 1.00[AMR][1000 genomes] |
| rs11050053 | 1.00[AMR][1000 genomes] |
| rs12302586 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs12307949 | 0.86[AFR][1000 genomes] |
| rs12308583 | 1.00[AMR][1000 genomes] |
| rs12321950 | 1.00[AMR][1000 genomes] |
| rs1466759 | 1.00[AMR][1000 genomes] |
| rs1826802 | 1.00[AMR][1000 genomes] |
| rs2060566 | 1.00[AMR][1000 genomes] |
| rs2349968 | 1.00[AMR][1000 genomes] |
| rs61083639 | 1.00[AMR][1000 genomes] |
| rs7962268 | 1.00[AMR][1000 genomes] |
| rs7963958 | 1.00[AMR][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 | nsv532233 | chr12:29009388-29496179 | Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 18 gene(s) | inside rSNPs | diseases |
| 2 | nsv995123 | chr12:29095272-29571558 | Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 35 gene(s) | inside rSNPs | diseases |
| 3 | esv2758301 | chr12:29110782-29289849 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 4 | esv2759888 | chr12:29110782-29289849 | Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:29240600-29245400 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
