Variant report
| Variant | rs4776079 |
|---|---|
| Chromosome Location | chr15:53175186-53175187 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:2)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:2 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | FOS | chr15:53175176-53175317 | MCF10A-Er-Src | breast: | n/a | n/a |
| 2 | FOS | chr15:53175174-53175255 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr15:53168390..53171371-chr15:53174252..53176521,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| RPSAP55 | TF binding region |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs10851524 | 1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.87[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs12898721 | 0.81[EUR][1000 genomes] |
| rs12900070 | 0.87[ASN][1000 genomes] |
| rs12911971 | 0.95[EUR][1000 genomes] |
| rs1899733 | 0.96[CEU][hapmap];0.96[EUR][1000 genomes] |
| rs1899735 | 0.96[CEU][hapmap];0.96[EUR][1000 genomes] |
| rs1899736 | 0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1899738 | 0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1899741 | 0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1899742 | 0.92[EUR][1000 genomes] |
| rs2414186 | 0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs4774638 | 0.96[CEU][hapmap];0.96[EUR][1000 genomes] |
| rs67231090 | 0.81[EUR][1000 genomes] |
| rs7166575 | 0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs8027796 | 0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs8032241 | 0.87[ASN][1000 genomes] |
| rs8032248 | 0.86[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 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 | nsv471245 | chr15:52607262-53187165 | Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 52 gene(s) | inside rSNPs | diseases |
| 2 | nsv1043999 | chr15:53162917-53187508 | Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr15:53165800-53183200 | Weak transcription | Pancreas | Pancrea |
