Role of Pseudoexons and Pseudointrons in Human Cancer
Table 1
Alternative splicing events detected in protein coding genes and pseudogenes implicated in cancer.
Alternative splicing event
Protein coding genes
CanGEM gene list (31057 entries)
% cancer protein coding genes
Cassette exon (CE)
13506
11771
87
Intron retention (IR)
8190
6775
83
Alternative 3′ss (A3SS)
6701
5685
85
Alternative 5′ss (A5SS)
6624
5640
85
Alternative first exons (AFE)
8050
7136
89
Alternative last exons (ALE)
3631
3233
89
Mutually exclusive exons (MXE)
3376
3006
89
Alternative splicing event
Pseudogenes
CanGEM gene LIST (31057 entries)
% cancer pseudogenes
Cassette exon (CE)
434
139
32
Intron retention (IR)
465
187
40
Alternative 3′ss (A3SS)
241
91
38
Alternative 5′ss (A5SS)
218
82
38
Alternative first exons (AFE)
91
27
30
Alternative last exons (ALE)
104
32
31
Mutually exclusive exons (MXE)
50
16
32
Homo sapiens genes (GRCh37.p10) dataset (62252 total genes) was used to filter alternative splicing events in protein coding genes (22719 entries) and pseudogenes (14775 entries) and verified their presence in the Cancer GEnome Mine database (31057 entries—CanGEM, http://www.cangem.org/).
