Fig. 3

Overall patterns of differential alternative splicing (DAS) distribution under various conditions. The Benjamini–Hochberg method was applied to obtain p-values corrected for false-discovery rate (FDR), and DAS events were identified using a cutoff of |ΔIncLevel| ≥ 0.1 and FDR < 0.05. (a) UpSet plot depicts the number of specific and shared DAS genes across the four conditions signaling molecules (yellow), biotic stressors (blue), abiotic stressors (green), and tissues (purple). Each intersection set is represented by abbreviations below the intersection matrix: signaling molecules (S), biotic stressors (B), abiotic stressors (A), tissues (T). (b) Distribution of DAS gene AS types in response to abiotic stressors, biotic stressors, signaling molecules, and tissues intersection sets. The x-axis shows the five different AS types, and the y-axis indicates the number of DAS genes included for each AS type: pink-alternative 3′ splice site (A3SS), green-alternative 5′ splice site (A5SS), gray-mutually exclusive exons (MXE), yellow-intron retention (RI), blue-exon skipping (SE).