Variant report
| Variant | rs55843534 |
|---|---|
| Chromosome Location | chr6:149478317-149478318 |
| 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:27)
| rs_ID | r2[population] |
|---|---|
| rs4308587 | 0.94[EUR][1000 genomes] |
| rs4357160 | 0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs4535574 | 0.92[EUR][1000 genomes] |
| rs4895778 | 0.88[EUR][1000 genomes] |
| rs55635503 | 0.94[EUR][1000 genomes] |
| rs56052955 | 1.00[AFR][1000 genomes];0.94[EUR][1000 genomes] |
| rs56071715 | 0.94[EUR][1000 genomes] |
| rs56098879 | 1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs56227122 | 0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs56367965 | 1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs57116615 | 0.96[AFR][1000 genomes];0.94[EUR][1000 genomes] |
| rs57204178 | 0.81[AMR][1000 genomes] |
| rs58260766 | 0.94[EUR][1000 genomes] |
| rs58500730 | 0.94[EUR][1000 genomes] |
| rs60008694 | 0.81[EUR][1000 genomes] |
| rs60107332 | 0.94[EUR][1000 genomes] |
| rs60424096 | 0.94[EUR][1000 genomes] |
| rs61338555 | 1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs61555942 | 0.94[EUR][1000 genomes] |
| rs62425887 | 0.94[EUR][1000 genomes] |
| rs62425895 | 0.94[EUR][1000 genomes] |
| rs62425899 | 0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs62425913 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62425916 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs62425928 | 0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs62425929 | 0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes] |
| rs62428289 | 0.94[EUR][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 | nsv1032319 | chr6:149271433-149550525 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 15 gene(s) | inside rSNPs | diseases |
| 2 | nsv538470 | chr6:149271433-149550525 | Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 15 gene(s) | inside rSNPs | diseases |
| 3 | nsv1024776 | chr6:149398652-149654593 | Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
| 4 | nsv1034080 | chr6:149456387-149480990 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS | Chromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:149476200-149487400 | Weak transcription | Primary T cells fromperipheralblood | blood |
| 2 | chr6:149478200-149479600 | Enhancers | HUES48 Cell Line | embryonic stem cell |
