Variant report
| Variant | rs13108828 |
|---|---|
| Chromosome Location | chr4:125174490-125174491 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:5)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:5 , 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 | chr4:125174189-125174506 | MCF10A-Er-Src | breast: | n/a | n/a |
| 2 | CEBPB | chr4:125174273-125175119 | HepG2 | liver: | n/a | chr4:125174949-125174960 chr4:125174949-125174958 chr4:125174949-125174958 chr4:125174949-125174958 chr4:125174949-125174958 chr4:125174947-125174958 chr4:125174947-125174960 |
| 3 | ESR1 | chr4:125174150-125174514 | ECC-1 | luminal epithelium: | n/a | n/a |
| 4 | ESR1 | chr4:125174184-125174547 | ECC-1 | luminal epithelium: | n/a | n/a |
| 5 | ESR1 | chr4:125174219-125174518 | ECC-1 | luminal epithelium: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000249837 | TF binding region |
rSNPs within LD-proxies of this variant (count:10)
| rs_ID | r2[population] |
|---|---|
| rs13129022 | 0.96[AMR][1000 genomes] |
| rs13145092 | 0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17007787 | 1.00[CHB][hapmap] |
| rs17008002 | 1.00[ASN][1000 genomes] |
| rs17008018 | 0.91[AMR][1000 genomes] |
| rs34247132 | 0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs61220738 | 1.00[ASN][1000 genomes] |
| rs67910509 | 0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs72919112 | 0.87[ASN][1000 genomes] |
| rs72919122 | 0.96[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | esv34581 | chr4:124271321-125247395 | Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 42 gene(s) | inside rSNPs | diseases |
| 2 | nsv868977 | chr4:124841128-125550637 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
| 3 | nsv432624 | chr4:125013395-125367740 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 4 | nsv998024 | chr4:125019384-125380876 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 5 | nsv537241 | chr4:125019384-125380876 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 6 | nsv1015049 | chr4:125037090-125393067 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 7 | nsv517857 | chr4:125147414-125248489 | Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
