Abstract: Using the UniGene database for Arabidopsis and rice information, root, leaf, flower, seed 4 kinds of tissue specific expression genes and tissue non-expression of genes were got. The promoter sequences were downloaded in the database of TAIR and RAP-DB. The promoter sequences of tissue specific expression of genes and tissue non-expression of genes were analysed by Bioinformatics software MEME, forecast the cis-acting element for regulation of tissue-specific expression genes. Next,every cis-acting element was tested in tissue specific expression genes and tissue non-expression of genes by FIMO. Most likely “CCACACA” is the Cis-acting element that control the expression in leaf of Arabidopsis thaliana. The research strategy can provide the references for understanding the mechanism of gene regulation.