Variant report
| Variant | rs1188165 |
|---|---|
| Chromosome Location | chr14:56451412-56451413 |
| 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:22)
| rs_ID | r2[population] |
|---|---|
| rs1188164 | 0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes] |
| rs1188167 | 0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1188168 | 0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1188169 | 0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1188170 | 0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1188171 | 0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs1188172 | 0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs1188173 | 0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1188177 | 0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1188178 | 0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs1188182 | 0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1188183 | 0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1188189 | 0.81[ASN][1000 genomes] |
| rs1188195 | 0.81[ASN][1000 genomes] |
| rs1188201 | 0.90[CHD][hapmap];0.82[JPT][hapmap];0.84[MEX][hapmap];0.88[ASN][1000 genomes] |
| rs1188202 | 0.91[CHB][hapmap];0.86[ASN][1000 genomes] |
| rs1188205 | 0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes] |
| rs8015854 | 0.90[ASN][1000 genomes] |
| rs922653 | 0.83[ASN][1000 genomes] |
| rs922654 | 0.83[ASN][1000 genomes] |
| rs922656 | 0.85[ASN][1000 genomes] |
| rs966880 | 0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][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 | nsv901977 | chr14:56213392-56492996 | Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 2 | esv34106 | chr14:56346245-56550642 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1188165 | SAMD4A | cis | parietal | SCAN |
| rs1188165 | RPS5 | trans | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr14:56451400-56451600 | Enhancers | iPS DF 19.11 Cell Line | embryonic stem cell |
