The genes encoding the nicotinic acetylcholine receptor ␣3, ␣5, and 4 subunits are genomically clustered. These genes are co-expressed in a variety of cells in the peripheral and central nervous systems. Their gene products assemble in a number of stoichiometries to generate several nicotinic receptor subtypes that have distinct pharmacological and physiological properties. Signaling through these receptors is critical for a variety of fundamental biological processes. Despite their importance, the transcriptional mechanisms underlying their coordinated expression remain to be completely elucidated. By using a bioinformatics approach, we identified a highly conserved intronic sequence within the fifth intron of the ␣3 subunit gene. Reporter gene analysis demonstrated that this sequence, termed "␣3 intron 5," inhibits the transcriptional activities of the ␣3 and 4 subunit gene promoters. This repressive activity is position-and orientation-independent. Importantly, repression occurs in a cell type-specific manner, being present in cells that do not express the receptor genes or expresses them at very low levels. Electrophoretic mobility shift assays demonstrate that nuclear proteins specifically interact with ␣3 intron 5 at two distinct sites. We propose that this intronic repressor element is important for the restricted expression patterns of the nicotinic receptor ␣3 and 4 subunit genes.Neuronal differentiation is a consequence of extrinsic and intrinsic regulatory cascades that ultimately act to regulate, both positively and negatively, gene expression. This process yields mature neurons that express a limited set of genes encoding proteins that perform specific functions (1-9). Part of this repertoire of genes is that of encoding proteins required for neuronal signaling, including neurotransmitter biosynthetic enzymes and their cognate neurotransmitter receptors. Acetylcholine is an excitatory neurotransmitter that interacts with both ionotropic and G-protein-coupled receptors. Signaling through ionotropic nicotinic acetylcholine (nACh) 2 receptors is involved in a variety of behaviors ranging from muscle contraction to memory formation (10 -13). In addition, acetylcholine and its receptors play important roles in neural development (14 -17). Not surprisingly, compromised signaling through nACh receptors is implicated in a number of neurological disorders (18 -35). Thus, understanding the molecular details underlying nACh receptor expression will shed light on various aspects of neural development and function as well as contribute to our understanding of several neuropathological conditions.In the nervous system, nACh receptors are encoded by a conserved family of genes consisting of at least 12 members, ␣2-␣10 and 2-4 (10, 11, 36 -39). A significant effort has been put forth to elucidate transcriptional mechanisms controlling expression of the nACh receptor genes (40, 41). We and others have focused on the regulation of a genomic cluster of receptor genes, those encoding the ␣3, ␣5, and 4 subunits (4...