A3SS	Alternative 3′ splice site
A5SS	Alternative 5′ splice site
ABA	Abscisic acid
ADK	Adenylate kinase
AP2/ERF	APETALA2/Ethylene Responsive Factor
AS	Alternative splicing
bp	Base pair
CBF	C-repeat binding factor
CDPK	Calcium-dependent protein kinase
COR	Cold-regulated genes
COX6A	Cytochrome c oxidase VIa
DAS	Differential alternative splicing
DEG	Differentially expressed gene
DREB	Dehydration-responsive element-binding
FDR	False discovery rate
GO	Gene Ontology
IGV	Integrative Genomics Viewer
kME	Intramodular connectivity
log2FC	Log2 fold change
MAPK	Mitogen-activated protein kinase
ME	Module eigengene
MXE	Mutually exclusive exons
NAC	NAM, ATAF, and CUC transcription factor
NCBI	National Center for Biotechnology Information
padj	Adjusted p-value
PCA	Principal Component Analysis
PK	Protein kinase
PPR	Pentatricopeptide repeat
PSI	Percent Spliced In
RI	Retained intron
RNA-Seq	RNA sequencing
ROS	Reactive oxygen species
SE	Skipped exon
SRA	Sequence Read Archive
TF	Transcription factor
TOM	Topological overlap matrix
TPT	Triose phosphate transporter
TR	Transcriptional regulator
VST	Variance Stabilizing Transformation
WGCNA	Weighted Gene Co-expression Network Analysis