Variant report
| Variant | rs1298513 |
|---|---|
| Chromosome Location | chr20:52896176-52896177 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:2 , 50 per page) page:
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| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000101132 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs1293132 | 0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs1293137 | 0.80[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs1293144 | 0.85[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs1382015 | 0.86[ASN][1000 genomes] |
| rs1477730 | 0.84[ASN][1000 genomes] |
| rs1542523 | 0.90[AMR][1000 genomes];0.89[EUR][1000 genomes] |
| rs2061721 | 0.85[ASN][1000 genomes] |
| rs2153964 | 0.90[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs2153965 | 0.90[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs2185849 | 0.90[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs2616330 | 0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs2616335 | 0.90[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs292120 | 0.84[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs292123 | 0.83[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs292125 | 0.83[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs292126 | 0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs292132 | 0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs292139 | 0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs292141 | 0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs292143 | 0.95[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs292144 | 0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs292146 | 0.95[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs6013944 | 0.94[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs6013960 | 0.84[EUR][1000 genomes] |
| rs6023082 | 0.94[EUR][1000 genomes];0.85[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 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 | nsv586224 | chr20:52474850-53279490 | Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 338 gene(s) | inside rSNPs | diseases |
| 2 | nsv834010 | chr20:52759824-52932939 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 119 gene(s) | inside rSNPs | diseases |
| 3 | nsv834011 | chr20:52858341-53086042 | Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS | Chromatin interactive regionlncRNA | 55 gene(s) | inside rSNPs | diseases |
| 4 | nsv962638 | chr20:52883415-52917517 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS | Chromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr20:52895400-52899200 | Weak transcription | Fetal Brain Male | brain |
