Variant report
| Variant | rs57496534 |
|---|---|
| Chromosome Location | chr3:161050707-161050708 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:27)
- CpG islands (count:0)
- Chromatin interactive region (count:3)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:27 , 50 per page) page:
1
| No data |
(count:3 , 50 per page) page:
1
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| PSMC1P7 | TF binding region |
| ENSG00000169251 | Chromatin interaction |
| ENSG00000271052 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:44)
| rs_ID | r2[population] |
|---|---|
| rs10513566 | 0.86[ASN][1000 genomes] |
| rs12632537 | 0.87[EUR][1000 genomes] |
| rs12634006 | 0.95[EUR][1000 genomes] |
| rs16832203 | 0.84[EUR][1000 genomes] |
| rs17418895 | 0.86[ASN][1000 genomes] |
| rs28713364 | 0.86[EUR][1000 genomes] |
| rs36015194 | 0.86[EUR][1000 genomes] |
| rs57278490 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs57803909 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs57916312 | 0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs57974280 | 1.00[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs58350275 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs58557417 | 0.84[EUR][1000 genomes] |
| rs58562874 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs58878734 | 1.00[AMR][1000 genomes];0.86[EUR][1000 genomes] |
| rs59371901 | 0.86[EUR][1000 genomes] |
| rs59541314 | 0.87[EUR][1000 genomes] |
| rs59686054 | 0.86[ASN][1000 genomes] |
| rs59761692 | 0.95[EUR][1000 genomes] |
| rs59777031 | 0.86[ASN][1000 genomes] |
| rs59964190 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs60400555 | 0.87[EUR][1000 genomes] |
| rs60612225 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs60684226 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs60866328 | 0.86[EUR][1000 genomes] |
| rs61048679 | 0.86[ASN][1000 genomes] |
| rs61217744 | 0.95[EUR][1000 genomes] |
| rs6788738 | 0.86[EUR][1000 genomes] |
| rs6798468 | 0.86[EUR][1000 genomes] |
| rs73023224 | 0.86[EUR][1000 genomes] |
| rs73878307 | 0.95[EUR][1000 genomes] |
| rs73878308 | 0.95[EUR][1000 genomes] |
| rs73878311 | 0.95[EUR][1000 genomes] |
| rs73878313 | 0.87[EUR][1000 genomes] |
| rs73878321 | 0.87[EUR][1000 genomes] |
| rs73878322 | 0.87[EUR][1000 genomes] |
| rs73878324 | 0.87[EUR][1000 genomes] |
| rs73878325 | 0.87[EUR][1000 genomes] |
| rs73878328 | 0.87[EUR][1000 genomes] |
| rs7625217 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs873183 | 0.95[EUR][1000 genomes] |
| rs896080 | 0.95[EUR][1000 genomes] |
| rs9834806 | 0.86[EUR][1000 genomes] |
| rs9839335 | 1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv931072 | chr3:160669567-161159779 | Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 98 gene(s) | inside rSNPs | diseases |
| 2 | nsv829770 | chr3:160989573-161069223 | Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 12 gene(s) | inside rSNPs | diseases |
| 3 | nsv4091 | chr3:161018540-161063875 | Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| 4 | nsv533237 | chr3:161019834-161804660 | Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 91 gene(s) | inside rSNPs | diseases |
| 5 | nsv829772 | chr3:161047817-161202554 | Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 88 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr3:161048200-161051800 | Enhancers | HepG2 | liver |
| 2 | chr3:161050600-161051000 | Enhancers | Adipose Derived Mesenchymal Stem Cell Cultured Cells | ES cell derived |
| 3 | chr3:161050600-161052200 | Enhancers | Mesenchymal Stem Cell Derived Adipocyte Cultured Cells | ES cell derived |
