Table 3 In silico predicted functional effects of 7 non-coding SNPs in the pharmacogenetics of sulfonylureas treatment by Haploreg v4.1, RegulomeDB, and Ensembl’s VEP*
SNP ID | Gene Symbol | dbSNP ID | SNP Location | Chromosome Location (GRCh38.p7) | HaploReg v4.1 Motifs changed by SNP | RegulomeDB Score/Prediction | Ensembl’s VEP |
|---|---|---|---|---|---|---|---|
SNP37 | KCNJ11 | rs5210 | 3’-UTR | 11:17386704 | None | 4/Minimal binding evidence | NA |
SNP38 | ABCC8 | rs1799854 | Intron 15 | 11:17427157 | 4 altered motifs | 5/Minimal binding evidence | NA |
SNP39 | TCF7L2 | rs7895340 | Intron 5 | 10:113041766 | Irf, PRDM1 | NA | NA |
SNP40 | TCF7L2 | rs7901695 | Intron 4 | 10:112994329 | None | 5/Minimal binding evidence | NA |
SNP41 | TCF7L2 | rs7903146 | Intron 4 | 10:112998590 | 7 altered motifs | 5/Minimal binding evidence | Risk factor |
SNP42 | TCF7L2 | rs11196205 | Intron 5 | 10:113047288 | SMC3 | 5/Minimal binding evidence | Risk factor |
SNP43 | TCF7L2 | rs12255372 | Intron 5 | 10:113049143 | 5 altered motifs | NA | Risk factor |