Full-length transcriptome sequencing (Iso-Seq) is a technique method by deployment of the third generation sequencing (TGS) technology to obtain the full length sequence of mRNA. With the development of TGS technology which is represented by single molecule real-time (SMRT) sequencing, is becoming more and more mature, and it’s application advantages in genome and transcript de novo sequencing, full-length transcriptome sequencing technology has been widely used in animals, plants and microorganisms, and produced a large number of related data. In this paper, the principle of Iso-Seq technology and the applications of full-length transcriptome sequencing in model and non-model plants are reviewed, which aims to provide reference in analysis of full-length transcripts in plants.