Variant report
| Variant | rs28462375 |
|---|---|
| Chromosome Location | chr18:40205587-40205588 |
| allele | A/G/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:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr1:145382149..145384906-chr18:40203578..40206564,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000233396 | Chromatin interaction |
| ENSG00000201558 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:19)
| rs_ID | r2[population] |
|---|---|
| rs1036079 | 0.82[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs1036080 | 0.82[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs16976378 | 0.81[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs16976528 | 0.85[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs1943176 | 0.85[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs1964355 | 0.81[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs28363928 | 0.82[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs28590475 | 0.82[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs60297859 | 0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs60628217 | 0.90[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs61465192 | 0.86[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs714296 | 1.00[EUR][1000 genomes] |
| rs7232281 | 1.00[EUR][1000 genomes] |
| rs7233685 | 0.81[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs73478552 | 0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs8084707 | 0.84[AFR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9955701 | 0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9960152 | 1.00[EUR][1000 genomes] |
| rs9966677 | 1.00[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 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 | esv3447158 | chr18:40045478-40320720 | Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 2 | nsv833632 | chr18:40187679-40388058 | Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | Chromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| 3 | nsv1056794 | chr18:40197837-40688514 | Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr18:40204000-40206000 | Weak transcription | Pancreatic Islets | Pancreatic Islet |
