Abstract: Molecular imprinted polymer is a kind of host molecules with highselectivity of molecular recognition. Usually such polymers are prepared and applied only in nonpolar solvents. Nevertheless, the authors, making use of the non-covalent interaction-hydrophobic and ionic interaction between the template and the functional monomer, succeeded to prepare a non-covalent molecular imprinted polymer in the presence of the polar solvent. It was used as an additive in the mobile phase of high performance capillary electrophoresis. Effects of monomer species, particle size and content of the molecular imprinted polymer, buffer pH value, and applied voltage on the ability of molecular recognition of the synthesized molecular imprinted polymer have been studied in aqueous buffer media. The results showed that it was possible to prepare non-covalent molecular imprinted polymers in polar solvents, and to use them in polar solvents as well.