Additional file 1 of Global profiling of CPL3-mediated alternative splicing reveals regulatory mechanisms of DGK5 in plant immunity and phosphatidic acid homeostasis

Additional file 1: Table S1a Summary of read counts in this study. Table S1b Summary of read counts in this study. Table S2a List of upregulated differentially expressed genes (DEGs) between mock and flg22 treated WT seedlings. Table S2b List of downregulated differentially expressed genes (DEGs) between mock and flg22 treated WT seedlings. Table S2c List of upregulated differentially expressed genes (DEGs) between mock and flg22 treated cpl3-3 seedlings. Table S2d List of downregulated differentially expressed genes (DEGs) between mock and flg22 treated cpl3-3 seedlings. Table S3a List of differentially alternatively spliced (DAS) genes between mock and flg22-treated WT seedlings. Table S3b List of differentially alternatively spliced (DAS) genes between mock and flg22-treated cpl3-3 seedlings. Table S4a List of upregulated differential transcript usages (DTUs) between mock and flg22-treated WT seedlings. Table S4b List of downregulated differential transcript usages (DTUs) between mock and flg22-treated WT seedlings. Table S4c List of upregulated differential transcript usages (DTUs) between mock and flg22-treated cpl3-3 seedlings. Table S4d List of downregulated differential transcript usages (DTUs) between mock and flg22-treated cpl3-3 seedlings. Table S5 GO terms and IDs used in this study. Table S6 List of basal differentially expressed genes (DEGs) between WT and cpl3-3 seedlings. Table S7 List of basal differentially alternatively spliced (DAS) genes between WT and cpl3-3 seedlings. Table S8a List of CPL3-dependent upregulated differentially expressed genes (DEGs) between mock and flg22-treated seedlings. Table S8b List of CPL3-dependent downregulated differentially expressed genes (DEGs) between mock and flg22-treated seedlings. Table S9a List of CPL3-dependent upregulated differential transcript usages (DTUs) between mock and flg22-treated seedlings. Table S9b List of CPL3 dependent downregulated differential transcript usages (DTUs) between mock and flg22-treated seedlings. Table S10 List of CPL3-dependent differentially alternatively spliced (DAS) genes between mock and flg22-treated seedlings. Table S11 Primers used in this study.