Novel screen-printed gold electrodes (AuSPE) modified with molecularly imprinted (MIP) polyphenol were fabricated to detection of guanine (GU) and Adenine (AD) in the presence of each other species. The electrochemical polymerization method in the presence of specific analyte (GU or AD) as template molecules was used for synthesize of MIP thin layer on AuSPE surface. To investigate the effect of the presence of a molecular template in the surface layer via the produce of binding sites, MIP electrodes were compared with non-imprinted (NIP) electrodes. The fabricated MIP sensors (GU-MIP-AuSPE and AD-MIP-AuSPE) were used in the detection of GU and AD by differential pulse voltammetry (DPV) in 0.1 M phosphate buffer solution at pH 7.0 as optimized pH. Anodic peak currents for AD and GU show two linearity intervals in the range of 5 to 50 nM and 50 to 500 nM for GU and 5 to 50 nM and 50 to 700 nM for AD. Also, the values of limit of detection (LOD = 3Sb/m) and the limit of quantification (LOQ = 10Sb/m) were calculated as 0.37 × 10−9 M and 1.25 × 10−9 M for GU and 0.24 × 10−9 M and 0.80 × 10−9 M for AD, respectively. On the other hand, he fabricated MIP sensors exhibited high sensitivity, good repeatability and long-term stability. The MIP sensors were successfully utilized for the measurement of GU and AD in real human serum samples.