21Sugi (Cryptomeria japonica D. Don) is an important conifer used for afforestation in Japan. 22 two tissue-specific libraries were compared, principal component analysis (PCA) showed that 34 there were significant differences between male strobili and leaf and bark sets. The highest three 35 upregulated transcription factors stood out as orthologs to angiosperms. The identified signature-36 like domain of the transcription factors demonstrated the accuracy of the assembly. Based on the 37 evaluation of different resources, we demonstrate that our transcriptome assembly output is 38 valuable and useful for further studies in functional genomics and evolutionary biology. 39 40