Variant report
| Variant | rs7239787 |
|---|---|
| Chromosome Location | chr18:40098512-40098513 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- 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 | chr18:40098148..40098690-chr8:92970399..92971029,2 | MCF-7 | breast: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-PIK3C3-5 | chr18:40096084-40098918 | ENSG00000267586.2 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs10775472 | 0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs12954826 | 0.92[ASN][1000 genomes] |
| rs1431836 | 0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs180829 | 0.93[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs346229 | 0.83[EUR][1000 genomes] |
| rs346230 | 0.80[EUR][1000 genomes] |
| rs346237 | 0.84[EUR][1000 genomes] |
| rs4300738 | 0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4303629 | 0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4474776 | 0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs4633808 | 0.85[ASN][1000 genomes] |
| rs57032575 | 0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs7229728 | 0.84[ASN][1000 genomes] |
| rs7506104 | 0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs8086796 | 0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs8096568 | 0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs9951191 | 0.86[ASN][1000 genomes] |
| rs9956876 | 0.86[ASN][1000 genomes] |
| rs9959682 | 0.86[ASN][1000 genomes] |
| rs9964813 | 0.85[ASN][1000 genomes] |
| rs9967058 | 0.86[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1059409 | chr18:39711099-40139446 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| 2 | 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 |
| 3 | nsv909573 | chr18:40050363-40131269 | Enhancers Weak transcription Active TSS Flanking Active TSS | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 4 | esv2754458 | chr18:40070202-40164902 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr18:40089800-40113000 | Weak transcription | Pancreatic Islets | Pancreatic Islet |
| 2 | chr18:40098400-40099000 | Enhancers | Stomach Mucosa | stomach |
