This study selected the young roots, stems and leaves of the native species Metasequoia glyptostroboides(M. glyptostroboides) as material and the total RNA was extracted from them, respectively. The RNA products were equally mixed and then was used for mRNA purification, reverse transcription and full-length transcriptome library construction. The SMRT(single-molecule real-time) technology was employed to sequence transcriptome library, and bioinformatics methods were used to analyze transcriptome data. The results showed that the extracted total RNA could meet the requirements of library construction; a total of 14.0 Gb of data containing 5 914 711 subreads were obtained, including 236 130 full-length non-chimeric reads and 97 626 consensus reads after quality control treatment. After redundancy removal, a total of 61 057 full-length unigenes were identified, among which 54 099 were successfully annotated into seven databases, accounting for 88.60%. In addition, CDS(coding sequence) length distribution and TFs(transcription factors) of these unigenes were analyzed. The CDS length ranged from 144 to 6 477 nt, with an average length of 679 nt; a total of 2386 transcription factors were detected, which could be classified into 29 families.