Variant report
| Variant | rs1809036 |
|---|---|
| Chromosome Location | chr15:76076959-76076960 |
| allele | A/C |
| Outlinks | Ensembl UCSC |
- TF binding region (count:11)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:11 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | EBF1 | chr15:76076863-76077065 | GM12878 | blood: | n/a | n/a |
| 2 | CTCF | chr15:76076861-76077217 | A549 | lung: | n/a | chr15:76077024-76077032 |
| 3 | CTCF | chr15:76076953-76077154 | K562 | blood: | n/a | chr15:76077024-76077032 |
| 4 | CTCF | chr15:76076951-76077317 | K562 | blood: | n/a | chr15:76077024-76077032 |
| 5 | CTCF | chr15:76076953-76077125 | A549 | lung: | n/a | chr15:76077024-76077032 |
| 6 | CTCF | chr15:76076955-76077118 | A549 | lung: | n/a | chr15:76077024-76077032 |
| 7 | USF1 | chr15:76076920-76077191 | HepG2 | liver: | n/a | n/a |
| 8 | CTCF | chr15:76076842-76077154 | A549 | lung: | n/a | chr15:76077024-76077032 |
| 9 | GABPA | chr15:76076939-76077245 | Hela-S3 | cervix: | n/a | n/a |
| 10 | FOSL2 | chr15:76076895-76077185 | HepG2 | liver: | n/a | n/a |
| 11 | USF1 | chr15:76076953-76077114 | HepG2 | liver: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr15:76075734..76078557-chr15:76084169..76086209,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| RN7SL319P | TF binding region |
| ENSG00000261820 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:20)
| rs_ID | r2[population] |
|---|---|
| rs1060530 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs1811793 | 1.00[EUR][1000 genomes] |
| rs1816935 | 1.00[EUR][1000 genomes] |
| rs2593291 | 1.00[EUR][1000 genomes] |
| rs2604398 | 1.00[EUR][1000 genomes] |
| rs2604399 | 1.00[EUR][1000 genomes] |
| rs2604400 | 1.00[EUR][1000 genomes] |
| rs2604407 | 1.00[EUR][1000 genomes] |
| rs28434426 | 1.00[AMR][1000 genomes] |
| rs28435793 | 0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28475197 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28587208 | 0.83[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28623414 | 0.94[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28645324 | 0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28777723 | 0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs3105362 | 1.00[EUR][1000 genomes] |
| rs3106794 | 1.00[EUR][1000 genomes] |
| rs59546376 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs8023631 | 1.00[EUR][1000 genomes] |
| rs8026030 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv531903 | chr15:75889302-76342128 | Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 97 gene(s) | inside rSNPs | diseases |
| 2 | nsv527186 | chr15:75924443-76107730 | Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 69 gene(s) | inside rSNPs | diseases |
| 3 | nsv974599 | chr15:76033068-76101142 | Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 13 gene(s) | inside rSNPs | diseases |
| 4 | nsv904397 | chr15:76072030-76119092 | Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr15:76074400-76077000 | Weak transcription | H1 Derived Mesenchymal Stem Cells | ES cell derived |
| 2 | chr15:76075400-76078600 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
| 3 | chr15:76075600-76085000 | Weak transcription | iPS DF 6.9 Cell Line | embryonic stem cell |
