Variant report
| Variant | rs58379062 |
|---|---|
| Chromosome Location | chr3:88670469-88670470 |
| allele | A/C |
| 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 | chr3:88662439..88664314-chr3:88669849..88671741,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs10511138 | 0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs12490357 | 0.85[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs12630722 | 0.82[EUR][1000 genomes] |
| rs12633026 | 0.82[EUR][1000 genomes] |
| rs12635866 | 0.87[EUR][1000 genomes] |
| rs12637931 | 0.81[EUR][1000 genomes] |
| rs12639499 | 0.85[AFR][1000 genomes];0.86[EUR][1000 genomes] |
| rs13073581 | 0.86[EUR][1000 genomes] |
| rs17559821 | 0.86[EUR][1000 genomes] |
| rs17560386 | 0.86[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs28447483 | 0.86[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs56076642 | 0.81[EUR][1000 genomes] |
| rs56302725 | 0.82[EUR][1000 genomes] |
| rs59757044 | 0.86[EUR][1000 genomes] |
| rs67260046 | 0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs67616120 | 0.83[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs6777020 | 0.80[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs73134314 | 0.81[EUR][1000 genomes] |
| rs73150583 | 0.82[EUR][1000 genomes] |
| rs73152336 | 0.84[EUR][1000 genomes];0.83[ASN][1000 genomes] |
| rs7431370 | 0.81[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 | nsv916330 | chr3:88083580-88884125 | Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 22 gene(s) | inside rSNPs | diseases |
| 2 | nsv1014703 | chr3:88623532-88733631 | Enhancers Weak transcription ZNF genes & repeats Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:88667800-88675400 | Weak transcription | Cortex derived primary cultured neurospheres | brain |
