As a transcription factor, the CCAAT/enhancer binding protein (C/EBP) induces the expression of specific genes by interacting with their promoters. C/EBP can trigger to express other genes, because it can open chromatin structure after binding to DNA, then lead to another transcription factors. In this study, we investigated the features and post-exercise expression patterns of two genes in the C/EBP family, C/EBPβ and C/EBPδ. The basic region leucine zipper motif (bZIP) is a crucial region of C/EBP, and analysis of synonymous and non-synonymous substitution ratios revealed that bZIP regions were well conserved in mammalian species. Quantitative real-time RT-PCR data showed that C/EBPβ and C/EBPδ expression increased significantly in the muscle after exercise, but did not do so in the blood. We therefore propose that exercise-induced increased expression of C/EBPβ and C/EBPδ may stimulate gene expression in physiological pathways in muscle cells.