The cDNA clones for rat aldolase C mRNA having the nearly complete length were isolated from a rat brain cDNA library and sequenced. The nucleotide sequence of pRAC2-1, a cDNA clone having the largest cDNA insert, indicates that the cDNA is composed of a 105-base-pair 5'-noncoding sequence, a 1089-base-pair codingsequence and a 382-base-pair 3'-noncoding sequence. The amino acid sequence of aldolase C deduced from a possible open reading frame was composed of 362 residues having a relative molecular mass of 39164 excluding the initiating methionine, one amino acid shorter than aldolases A and B. The length of aldolase C mRNA was 1750 residues, somewhat longer than that of the aldolase A and B transcripts. The aldolase C mRNA was distributed mainly in the brain, some in ascites hepatoma and fetal liver.Comparison of the amino acid sequences of rat aldolase C with those for rat aldolase A and B [Joh et al. (1985) Gene 39, 17 -24; Tsutsumi et al. (1984) J. Biol. Chem. 259, 14 572 -14 5751, which have been determined previously, shows the existence of highly conserved stretches of amino acid among the three isozymic forms throughout their sequences. The extent of the homology between aldolases A and C is 81%, while those between aldolases A and B, and B and C are 70%, respectively. The analysis of amino acid substitution among aldolases A, B and C from several species suggests that the isozyme genes diverged much earlier than animal species appeared and that the aldolase C gene has evolved from the aldolase A gene after aldolase A and B genes diverged.Vertebrate fructose-l,6-bisphosphate aldolase, a glycolytic enzyme, comprises three types of isozyme: aldolase A (muscle type), B (liver type), and C (brain type) [l]. These three aldolases have nearly the same molecular size, but differ in substrate specificity and electrophoretic mobility from each other. The expression of isozyme in various tissues and the change of the isozymic forms during development and carcinogenesis have been extensively studied in several species Aldolase C is mainly expressed in brain [3], some in fetal liver [4] and ascites hepatoma along with the expression of aldolase A [5, 61, and at a very low level in skeletal muscle, heart muscle and spleen [3]. Although aldolase C was suggested to be localized in neuron and glial cells of brain by immunohistochemical methods [7], it is not known, at present, why its expression is confined within brain and how the expression is regulated during development of the brain.To date, in order to elucidate the molecular mechanism of aldolase gene expression, we and other groups have determined the nucleotide sequences of cDNA and genomic genes of aldolase A and B of human [8 -121, rat [13 -171, rabbit [18] and chicken [19]. These studies have shed light on the structure and expression of aldolase isozyme A and B genes. Recently, partial sequences of aldolase C cDNA clones of mouse [20] and rat [21] and a nearly complete sequence of genomic clones of human aldolase C [22] have been reported. PI.