Fig. 3

Comparison analysis of differentially spliced genes (DSGs) and differentially expressed genes (DEGs) in response to the DS and RD treatments in linseed seedlings. a Scatter plot showing AS patterns and gene expression changes after the DS and RD treatments. The abscissa indicates the fold of the difference in gene expression level, which is represented by the log2-transformed fold change (FC). The ordinate indicates the gene expression amount expressed by log-transformed counts per million reads (CPM). The red dots in the figure represent genes identified as both DSGs and DEGs, the yellow dots are genes identified as DSGs, and the grey dots represent genes identified as other expression genes. The numbers in the figure indicating the number of corresponding genes. b Histograms indicate the number of DSGs with upregulated (blue squares) and downregulated (orange squares) gene expression under the DS and RD treatments in Z141 and NY-17. c Tree diagram showing an example of the REVIGO analysis of overlapping DSGs and DEGs. The complete REVIGO analysis results are provided in Additional file 9. d Comparison of the proportion of DSGs identified in DEGs and non-DEGs under the DS and RD treatments. The proportion of DSGs in DEGs was much higher than that in non-DEGs in Z141 and NY-17 under the RD treatment, and the P values indicate significance levels based on Fisher’s exact test. e Venn diagram showing overlapping DSGs in Z141 and NY-17 under DS and RD treatments