4-Chloro-2-methylpyrimidine-5-boronic acid is primarily used in organic synthesis, particularly in Suzuki-Miyaura cross-coupling reactions. This reaction is widely employed in the pharmaceutical and agrochemical industries to form carbon-carbon bonds, enabling the creation of complex molecules. The compound serves as a versatile building block for the development of biologically active compounds, including potential drug candidates. Its boronic acid group facilitates efficient coupling with various aryl or vinyl halides, making it valuable in the synthesis of heterocyclic compounds. Additionally, it is utilized in the preparation of intermediates for materials science applications, such as the development of organic electronic materials. Its role in medicinal chemistry is significant, as it aids in the discovery and optimization of new therapeutic agents.