2-Iodo-4-methoxypyrimidine is primarily used as a versatile building block in organic synthesis, particularly in the development of pharmaceuticals and agrochemicals. Its structure allows for efficient cross-coupling reactions, such as Suzuki or Sonogashira couplings, making it valuable for constructing complex molecules. In medicinal chemistry, it serves as an intermediate in the synthesis of compounds with potential therapeutic properties, including antiviral and anticancer agents. Additionally, its methoxy and iodo functional groups enable further functionalization, enhancing its utility in designing novel chemical entities for drug discovery and development.