Variant report
| Variant | rs675319 |
|---|---|
| Chromosome Location | chr11:106178489-106178490 |
| allele | A/T |
| 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 | chr11:106178395-106178571 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000255065 | TF binding region |
rSNPs within LD-proxies of this variant (count:18)
| rs_ID | r2[population] |
|---|---|
| rs10750750 | 0.96[EUR][1000 genomes] |
| rs1268739 | 0.97[ASN][1000 genomes] |
| rs1605565 | 0.85[EUR][1000 genomes] |
| rs1955018 | 0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs2409624 | 0.97[EUR][1000 genomes] |
| rs3018017 | 0.86[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs3018019 | 0.87[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs4755146 | 0.96[EUR][1000 genomes] |
| rs488212 | 0.86[ASN][1000 genomes] |
| rs542358 | 0.88[ASN][1000 genomes] |
| rs584889 | 0.90[ASN][1000 genomes] |
| rs594050 | 0.84[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs613928 | 0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs617143 | 0.87[ASN][1000 genomes] |
| rs660647 | 0.88[ASN][1000 genomes] |
| rs667501 | 0.87[ASN][1000 genomes] |
| rs674799 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs687908 | 0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 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 | nsv1048381 | chr11:105945117-106561574 | Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 13 gene(s) | inside rSNPs | diseases |
| 2 | nsv898358 | chr11:105999580-106182251 | Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | esv2754854 | chr11:106092790-106245790 | Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 4 | nsv1054471 | chr11:106168484-106427713 | Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr11:106175600-106181800 | Weak transcription | Adipose Derived Mesenchymal Stem Cell Cultured Cells | ES cell derived |
