Homeobox-containing genes are associated with the control of various stages in embryogenesis. LIM-homeodomain genes have been implicated in the control of differentiation of specific cell types in both neuronal and non-neuronal tissues, yet there have been few studies comparing the expression domains of these genes in the developing brain of a single species. In the present study, we isolated murine LIM-homeodomain genes (LH-2, lim-1, and L3) by reverse transcription-polymerase chain reaction (RT-PCR) method and investigated their expression domains in the embryonic brain by in situ hybridization analysis. These mRNAs showed mutually exclusive expression patterns suggesting that these factors may be involved in region-specific differentiation in the developing brain.