Data quality and annotation of transcripts assembled with mRNA-seq.

<p><b>A:</b> Length distribution of transcripts. <b>B:</b> Gap distribution of transcripts. <b>C:</b> Function annotation of the transcripts based on KEGG classification. The numbers of transcripts mapped to each pathway group are shown in the bar chart. The color indicates different KEGG categories: blue for metabolism, orange for genetic information processing, purple for environmental information processing, green for cellular processes, and red for organismal systems. <b>D:</b> Gene ontology (GO) classification of the transcripts. Each bar represents the number of transcripts mapped to each GO category. The color indicates different GO categories: blue for biological process (BP), green for cellular component (CC), and red for molecular function (MF). <b>E:</b> Principle components analysis (PCA) for the samples based on the raw reads of the transcripts. The red balls represent leaf samples, the gray balls represent stem samples, and the blue balls represent root samples. The color indicates the number range in PC #1 (Principal Component 1) shown in the color bar.