Variant report
| Variant | rs59393042 |
|---|---|
| Chromosome Location | chr5:79608210-79608211 |
| 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 | POLR2A | chr5:79608182-79608257 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000244076 | TF binding region |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs10040789 | 0.92[ASN][1000 genomes] |
| rs10040794 | 0.92[ASN][1000 genomes] |
| rs10056190 | 0.85[ASN][1000 genomes] |
| rs10942920 | 0.92[ASN][1000 genomes] |
| rs12655069 | 0.92[ASN][1000 genomes] |
| rs2112151 | 0.92[ASN][1000 genomes] |
| rs2161093 | 0.92[ASN][1000 genomes] |
| rs4478300 | 0.92[ASN][1000 genomes] |
| rs4703808 | 0.85[ASN][1000 genomes] |
| rs4704661 | 0.89[ASN][1000 genomes] |
| rs4704662 | 0.86[ASN][1000 genomes] |
| rs6453514 | 0.92[ASN][1000 genomes] |
| rs6859753 | 0.85[ASN][1000 genomes] |
| rs6897248 | 0.92[ASN][1000 genomes] |
| rs7720696 | 0.85[ASN][1000 genomes] |
| rs7734893 | 0.92[ASN][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 | nsv948807 | chr5:79549207-79805765 | Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 49 gene(s) | inside rSNPs | diseases |
| 2 | nsv518480 | chr5:79586085-79748382 | Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 26 gene(s) | inside rSNPs | diseases |
| 3 | nsv980690 | chr5:79591958-79614381 | Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive region | 5 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:79606400-79611400 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
