Variant report
| Variant | rs62360101 |
|---|---|
| Chromosome Location | chr5:57092196-57092197 |
| allele | A/G |
| 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:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr5:57090164..57093068-chr5:57754587..57756134,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000145632 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:23)
| rs_ID | r2[population] |
|---|---|
| rs2898029 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs58133420 | 0.95[EUR][1000 genomes] |
| rs58174590 | 0.95[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs58436811 | 1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs59596075 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs60783862 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs61514760 | 0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62358429 | 0.82[ASN][1000 genomes] |
| rs62358435 | 0.82[ASN][1000 genomes] |
| rs62360074 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62360075 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62360076 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62360103 | 0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62360104 | 1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62360105 | 0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62360109 | 1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62360110 | 1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs62360133 | 0.95[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs62360137 | 0.95[EUR][1000 genomes] |
| rs6865443 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6866728 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7723284 | 0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs960880 | 1.00[EUR][1000 genomes];0.96[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 | nsv525330 | chr5:56931673-57320343 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 2 | esv2756302 | chr5:56978143-57180143 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 3 | nsv830310 | chr5:56989346-57176006 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 4 | esv2763454 | chr5:57006531-57161140 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:57088800-57102600 | Weak transcription | H1 Derived Neuronal Progenitor Cultured Cells | ES cell derived |
