Variant report
| Variant | rs28679593 |
|---|---|
| Chromosome Location | chr6:114345868-114345869 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:7)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:7 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | POLR2A | chr6:114345727-114345963 | MCF-7 | breast: | n/a | n/a |
| 2 | MYC | chr6:114345832-114345958 | MCF-7 | breast: | n/a | n/a |
| 3 | CTCF | chr6:114345860-114345957 | MCF-7 | breast: | n/a | n/a |
| 4 | MYC | chr6:114345832-114345955 | MCF-7 | breast: | n/a | n/a |
| 5 | POLR2A | chr6:114345757-114345962 | MCF-7 | breast: | n/a | n/a |
| 6 | MYC | chr6:114345803-114345961 | MCF-7 | breast: | n/a | n/a |
| 7 | CTCF | chr6:114345864-114345944 | MCF-7 | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| NUDT19P3 | TF binding region |
rSNPs within LD-proxies of this variant (count:33)
| rs_ID | r2[population] |
|---|---|
| rs1031799 | 1.00[AMR][1000 genomes] |
| rs1031802 | 1.00[AMR][1000 genomes] |
| rs13437352 | 1.00[AMR][1000 genomes] |
| rs1462383 | 1.00[AMR][1000 genomes] |
| rs1841744 | 1.00[AMR][1000 genomes] |
| rs1903679 | 1.00[AMR][1000 genomes] |
| rs2615509 | 1.00[AMR][1000 genomes] |
| rs2615515 | 1.00[AMR][1000 genomes] |
| rs2615527 | 1.00[AMR][1000 genomes] |
| rs2615528 | 1.00[AMR][1000 genomes] |
| rs2753885 | 1.00[AMR][1000 genomes] |
| rs2810181 | 1.00[AMR][1000 genomes] |
| rs2810184 | 1.00[AMR][1000 genomes] |
| rs2810185 | 1.00[AMR][1000 genomes] |
| rs2810186 | 1.00[AMR][1000 genomes] |
| rs2810192 | 1.00[AMR][1000 genomes] |
| rs2810193 | 1.00[AMR][1000 genomes] |
| rs2810194 | 1.00[AMR][1000 genomes] |
| rs2810197 | 1.00[AMR][1000 genomes] |
| rs352069 | 1.00[AMR][1000 genomes] |
| rs352072 | 1.00[AMR][1000 genomes] |
| rs352076 | 1.00[AMR][1000 genomes] |
| rs352088 | 1.00[AMR][1000 genomes] |
| rs352089 | 1.00[AMR][1000 genomes] |
| rs476354 | 1.00[AMR][1000 genomes] |
| rs508935 | 1.00[AMR][1000 genomes] |
| rs569246 | 1.00[AMR][1000 genomes] |
| rs574054 | 1.00[AMR][1000 genomes] |
| rs612475 | 1.00[AMR][1000 genomes] |
| rs9481401 | 1.00[AMR][1000 genomes] |
| rs9481414 | 1.00[AMR][1000 genomes] |
| rs9488287 | 1.00[AMR][1000 genomes] |
| rs9488310 | 1.00[AMR][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 | nsv1021774 | chr6:114063971-114407280 | Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 60 gene(s) | inside rSNPs | diseases |
| 2 | nsv538422 | chr6:114063971-114407280 | Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 60 gene(s) | inside rSNPs | diseases |
| 3 | nsv1024062 | chr6:114311029-114679557 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 59 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:114338600-114352200 | Weak transcription | Brain Hippocampus Middle | brain |
| 2 | chr6:114341800-114346400 | Weak transcription | HSMMtube | muscle |
| 3 | chr6:114345800-114346200 | Enhancers | Fetal Adrenal Gland | Adrenal Gland |
| 4 | chr6:114345800-114346400 | Genic enhancers | HSMM | muscle |
