Variant report
| Variant | rs56299412 |
|---|---|
| Chromosome Location | chr12:59342166-59342167 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs11831827 | 0.83[EUR][1000 genomes] |
| rs1436665 | 0.84[EUR][1000 genomes] |
| rs17121768 | 1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs17121797 | 0.80[EUR][1000 genomes] |
| rs17536158 | 0.89[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs17537478 | 0.83[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs17618789 | 0.90[ASN][1000 genomes] |
| rs17625922 | 0.83[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs17626131 | 0.83[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs4760146 | 1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4760248 | 0.82[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs55670466 | 0.83[EUR][1000 genomes];0.85[ASN][1000 genomes] |
| rs56042852 | 0.88[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs56225528 | 0.84[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs56376361 | 1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs59263143 | 0.89[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs7134004 | 0.82[ASN][1000 genomes] |
| rs767773 | 1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7955499 | 0.95[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs9668093 | 0.89[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs978615 | 0.82[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 | nsv1043385 | chr12:59149582-59758952 | Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 17 gene(s) | inside rSNPs | diseases |
| 2 | nsv1067596 | chr12:59167152-59764208 | Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 16 gene(s) | inside rSNPs | diseases |
| 3 | nsv492251 | chr12:59167152-59764208 | Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 16 gene(s) | inside rSNPs | diseases |
| 4 | nsv559048 | chr12:59336737-59440659 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 4 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:59340400-59342800 | ZNF genes & repeats | hESC Derived CD184+ Endoderm Cultured Cells | ES cell derived |
| 2 | chr12:59341200-59345800 | Weak transcription | Sigmoid Colon | Sigmoid Colon |
