Dual specificity tyrosine phosphorylation-regulated kinases, DYRKs, are a family of conserved protein kinases that play key roles in the regulation of cell differentiation, proliferation, and survival. Of the five mammalian DYRKs, DYRK4 is the least studied family member. Here, we show that several splice variants of DYRK4 are expressed in tissue-specific patterns and that these variants have distinct functional capacities. One of these variants contains a nuclear localization signal in its extended N terminus that mediates its interaction with importin ␣3 and ␣5 and that is capable of targeting a heterologous protein to the nucleus. Consequently, the nucleocytoplasmic mobility of this variant differs from that of a shorter isoform in live cell imaging experiments. Other splicing events affect the catalytic domain, including a three-amino acid deletion within subdomain XI that markedly reduces the enzymatic activity of DYRK4. We also show that autophosphorylation of a tyrosine residue within the activation loop is necessary for full DYRK4 kinase activity, a defining feature of the DYRK family. Finally, by comparing the phosphorylation of an array of 720 peptides, we show that DYRK1A, DYRK2, and DYRK4 differ in their target recognition sequence and that preference for an arginine residue at position P ؊3 is a feature of DYRK1A but not of DYRK2 and DYRK4. Therefore, we highlight the use of subcellular localization as an important regulatory mechanism for DYRK proteins, and we propose that substrate specificity could be a source of functional diversity among DYRKs.Dual specificity tyrosine phosphorylation-regulated kinases (DYRKs) 3 are members of an evolutionarily conserved family of protein kinases that play key roles in the regulation of cell differentiation, proliferation, and survival (1, 2). DYRKs share a conserved kinase domain and adjacent N-terminal DYRK homology (DH)-box, although they differ in their N-and Cterminal extensions (3). From a phylogenetic point of view, DYRKs are divided into two subclasses that can be identified through the presence of specific protein motifs (2). Class I DYRKs harbor a functional, bipartite nuclear localization signal (NLS) N-terminal to the DH-box, and a C-terminal PEST or GAS region. This class includes the Drosophila minibrain kinase (mnb), Caenorhabditis elegans MBK-1, and mammalian DYRK1A and DYRK1B (4 -6). Class II DYRKs do not present any known protein domain within the N-and C-terminal extensions, except for the NAPA domain N-terminal to the DH-box (7), and they include mammalian DYRK2, DYRK3, and DYRK4, Drosophila dDYRK2 (smi35), C. elegans MBK-2 and Schizosaccharomyces pombe Pom1p (4,5,8,9).DYRKs contain a conserved Tyr-Xaa-Tyr motif in the activation loop, and the phosphorylation of the second tyrosine residue is essential for full catalytic activity of all the DYRKs tested to date (2, 10). Using dDYRK2 as a model, it has been shown that this critical tyrosine residue is autophosphorylated during translation (11), although notably, mature DYRKs only phosphoryl...