AS	Alternative splicing
DAS	Differential alternative splicing
DSG	Differentially spliced gene
DEG	Differentially expressed gene
FPKM	Fragments per kilobase of transcript per million mapped reads
J	Jonathan
SD	Starking Delicious
HPI	Hours post inoculation
GO	Gene ontology
KEGG	Kyoto Encyclopedia of Genes and Genomes
SE	Skipped exon
RI	Retained intron
A3SS	Alternative 3′ splice sites
A5SS	Alternative 5′ splice sites
MXE	Mutually exclusive exon
A. alternata AP	Alternaria alternata apple pathotype
Bgt	Blumeria graminis f. sp. tritici
Pst	Puccinia striiformis f. sp. Tritici
M. oryzae	Magnaporthe oryzae
Xoo	Xanthomonas oryzae pv oryzae
SJs	Splicing junctions
CDS	Coding sequence
5′-UTR	5′ Un-translated region
3′-UTR	3′ Un-translated region
PTC	Premature stop codons
ORF	Open reading frame
NMD	Nonsense-mediated-decay
JA	Jasmonic acid
SA	Salicylic acid
ABA	Abscisic acid
PR	Pathogenesis-related
SR	Serine/arginine-rich
PDA	Potato dextrose agar