Variant report
| Variant | rs10201731 |
|---|---|
| Chromosome Location | chr2:178794619-178794620 |
| allele | A/C/G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:18)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:18 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | FOXA1 | chr2:178794478-178794646 | T-47D | breast: | n/a | n/a |
| 2 | FOS | chr2:178794608-178794808 | MCF10A-Er-Src | breast: | n/a | n/a |
| 3 | FOXA1 | chr2:178794452-178794760 | T-47D | breast: | n/a | chr2:178794669-178794681 |
| 4 | FOS | chr2:178794535-178794881 | MCF10A-Er-Src | breast: | n/a | n/a |
| 5 | TCF7L2 | chr2:178794495-178795173 | PANC-1 | pancreas: | n/a | n/a |
| 6 | E2F4 | chr2:178794527-178794831 | MCF10A-Er-Src | breast: | n/a | n/a |
| 7 | GATA3 | chr2:178794309-178794844 | A549 | lung: | n/a | n/a |
| 8 | POLR2A | chr2:178794464-178794822 | PANC-1 | pancreas: | n/a | n/a |
| 9 | TCF12 | chr2:178794363-178794896 | A549 | lung: | n/a | n/a |
| 10 | CEBPB | chr2:178794459-178794782 | A549 | lung: | n/a | n/a |
| 11 | FOXA1 | chr2:178794352-178794845 | HepG2 | liver: | n/a | chr2:178794669-178794681 |
| 12 | FOS | chr2:178794532-178794875 | MCF10A-Er-Src | breast: | n/a | n/a |
| 13 | FOXA2 | chr2:178794432-178794851 | A549 | lung: | n/a | chr2:178794669-178794681 |
| 14 | CEBPB | chr2:178794530-178794721 | HepG2 | liver: | n/a | n/a |
| 15 | FOSL2 | chr2:178794452-178794862 | A549 | lung: | n/a | n/a |
| 16 | FOS | chr2:178794583-178794881 | MCF10A-Er-Src | breast: | n/a | n/a |
| 17 | REST | chr2:178794501-178794830 | A549 | lung: | n/a | n/a |
| 18 | POLR2A | chr2:178794419-178794756 | PANC-1 | pancreas: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr2:178787400..178789343-chr2:178793687..178796029,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| PDE11A | TF binding region |
| ENSG00000128655 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:20)
| rs_ID | r2[population] |
|---|---|
| rs11899873 | 0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[ASN][1000 genomes] |
| rs12618253 | 0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1405648 | 0.80[ASN][1000 genomes] |
| rs16865901 | 0.80[ASN][1000 genomes] |
| rs16865906 | 0.80[ASN][1000 genomes] |
| rs16865921 | 0.84[ASN][1000 genomes] |
| rs16866000 | 0.85[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs17329531 | 0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes] |
| rs17330075 | 0.82[AFR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs17401986 | 0.80[AFR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs1898587 | 0.80[ASN][1000 genomes] |
| rs2365899 | 0.80[ASN][1000 genomes] |
| rs2695092 | 0.81[ASN][1000 genomes] |
| rs2695742 | 0.81[ASN][1000 genomes] |
| rs3108451 | 0.93[ASN][1000 genomes] |
| rs4468852 | 0.80[ASN][1000 genomes] |
| rs55841094 | 0.89[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs60047236 | 0.83[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs7558482 | 0.81[ASN][1000 genomes] |
| rs7570981 | 0.92[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv533377 | chr2:178718801-178963463 | Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 2 | nsv1007579 | chr2:178729330-178890946 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 3 | nsv875451 | chr2:178748294-178953409 | Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 4 | nsv998304 | chr2:178756380-178924378 | Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 5 | nsv536056 | chr2:178756380-178924378 | Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
