Variant report
| Variant | rs62575808 |
|---|---|
| Chromosome Location | chr9:104251600-104251601 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | STAT3 | chr9:104251476-104251632 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| TMEM246 | TF binding region |
rSNPs within LD-proxies of this variant (count:22)
| rs_ID | r2[population] |
|---|---|
| rs10512282 | 0.81[EUR][1000 genomes] |
| rs11788114 | 0.87[EUR][1000 genomes] |
| rs11790230 | 0.87[EUR][1000 genomes] |
| rs11790317 | 0.81[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs11791337 | 0.81[EUR][1000 genomes] |
| rs16920443 | 0.89[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs16920462 | 0.90[EUR][1000 genomes] |
| rs17188758 | 0.81[EUR][1000 genomes] |
| rs35681249 | 0.92[AMR][1000 genomes];0.99[EUR][1000 genomes] |
| rs59782949 | 0.90[EUR][1000 genomes] |
| rs61051202 | 0.86[EUR][1000 genomes] |
| rs61396182 | 0.97[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs61685305 | 0.97[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs62575815 | 0.91[EUR][1000 genomes] |
| rs62575839 | 0.84[EUR][1000 genomes] |
| rs62575842 | 0.87[EUR][1000 genomes] |
| rs62575844 | 0.81[EUR][1000 genomes] |
| rs62575845 | 0.87[EUR][1000 genomes] |
| rs62575846 | 0.81[EUR][1000 genomes] |
| rs62575847 | 0.81[EUR][1000 genomes] |
| rs66786600 | 0.81[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs67248872 | 0.81[EUR][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 | nsv1046975 | chr9:104167583-104659873 | Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 15 gene(s) | inside rSNPs | diseases |
| 2 | nsv893626 | chr9:104172936-104324545 | Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 12 gene(s) | inside rSNPs | diseases |
| 3 | nsv949579 | chr9:104229820-104512923 | Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 14 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr9:104250000-104253600 | Weak transcription | H1 Derived Neuronal Progenitor Cultured Cells | ES cell derived |
