Variant report
| Variant | rs1909650 |
|---|---|
| Chromosome Location | chr13:53791895-53791896 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr13:53225145..53227561-chr13:53790469..53792639,3 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000165416 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:28)
| rs_ID | r2[population] |
|---|---|
| rs12860317 | 1.00[CHB][hapmap];0.86[CHD][hapmap] |
| rs1322948 | 0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs1322953 | 0.83[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs1322954 | 0.89[ASN][1000 genomes] |
| rs1407688 | 0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs1407689 | 0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1909648 | 0.82[EUR][1000 genomes] |
| rs1923770 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1923772 | 0.83[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs1951724 | 0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs2004422 | 0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs2015677 | 0.81[EUR][1000 genomes] |
| rs2038648 | 0.98[ASN][1000 genomes] |
| rs2038649 | 0.83[EUR][1000 genomes] |
| rs2759674 | 0.83[EUR][1000 genomes] |
| rs2806937 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs2806940 | 0.82[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs2806947 | 0.89[ASN][1000 genomes] |
| rs2806956 | 0.83[EUR][1000 genomes] |
| rs2806960 | 0.83[EUR][1000 genomes] |
| rs2806963 | 0.81[EUR][1000 genomes] |
| rs2806964 | 0.81[EUR][1000 genomes] |
| rs2806965 | 0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs2806968 | 0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs4886312 | 0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs5008125 | 0.86[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs927518 | 0.82[CEU][hapmap];0.83[EUR][1000 genomes] |
| rs959222 | 0.83[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1050969 | chr13:53665927-54064861 | Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 2 | esv1840677 | chr13:53774627-53791895 | Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription | Chromatin interactive region | 1 gene(s) | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr13:53791400-53792400 | Enhancers | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
| 2 | chr13:53791400-53792400 | Enhancers | Pancreatic Islets | Pancreatic Islet |
