Variant report
| Variant | rs13383096 |
|---|---|
| Chromosome Location | chr2:86631313-86631314 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr2:86630182..86633982-chr2:86666784..86669925,4 | MCF-7 | breast: | |
| 2 | chr2:86630213..86633133-chr2:86645838..86647616,2 | MCF-7 | breast: | |
| 3 | chr2:86630490..86633465-chr2:86635525..86637778,2 | MCF-7 | breast: | |
| 4 | chr2:86629640..86632102-chr2:86632580..86634181,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000115548 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:26)
| rs_ID | r2[population] |
|---|---|
| rs10178917 | 0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs10180036 | 0.87[AMR][1000 genomes] |
| rs10208989 | 0.87[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs11127034 | 0.82[ASN][1000 genomes] |
| rs1113169 | 0.98[ASN][1000 genomes] |
| rs12617075 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs12714181 | 0.83[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs12714183 | 0.81[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs12714184 | 0.87[AMR][1000 genomes] |
| rs12714186 | 0.87[AMR][1000 genomes] |
| rs13035266 | 0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs13420491 | 0.86[AMR][1000 genomes];0.88[EUR][1000 genomes] |
| rs1964089 | 0.85[EUR][1000 genomes] |
| rs2113607 | 0.90[ASN][1000 genomes] |
| rs2292887 | 0.81[AMR][1000 genomes] |
| rs2367237 | 0.94[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs4832278 | 0.82[ASN][1000 genomes] |
| rs4832279 | 0.85[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs4832280 | 0.85[EUR][1000 genomes];0.82[ASN][1000 genomes] |
| rs4832282 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs62150269 | 0.85[AMR][1000 genomes] |
| rs6547677 | 0.81[AMR][1000 genomes];0.85[EUR][1000 genomes] |
| rs6716701 | 0.81[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs766285 | 0.80[EUR][1000 genomes] |
| rs908791 | 0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs958561 | 0.87[AMR][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 | esv3412938 | chr2:86370969-86867936 | Strong transcription Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 77 gene(s) | inside rSNPs | diseases |
| 2 | nsv532724 | chr2:86622295-87086407 | Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 45 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs13383096 | VPS24 | Cis_1M | lymphoblastoid | RTeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
