In our study, 8 anthocyanins biosynthesis related MYB candidate genes were identified by using bioinformatics technologies and the expression profiles in different tissues and stages of fruits during the development and determined by transcriptome data and real time PCR. Phylogenetic analysis indicated that 4 MYB genes were closed to MYB genes from Vitis vinifera L., Oryza sativa and Zea mays L., while only 1 MYB gene was grouped into one cluster with those from Arabidopsis thaliana and Malus domestica L.. High level of transcripts of major genes in male flower was determined by transcriptome data. Continuous downregulation expressions of MnMYBJ and MnMYB4 during the development of mulberry fruits were confirmed, while MnMYB330 had a continuous upregulation expression. Therefore, MYB genes have positive regulation and negative regulation during the accumution of anthocyanins.