WORKFLOW

blastx against genbank protein database

-Blast sequences with cassette exon spliced in and spliced out against the five four species and human -Filter: the alignment must start in the upstream exon and end in the downstream exon
-Gap introduced cannot be larger than the cassette exon length / 3
-If there are blast results for both spliced in and spliced out sequences, then that splicing event is conserved

Number of total cassette splicing events: 6898
Number of genes involved: 4121

BLAST RESULTS:

Species Number of Conserved Cassette Splicing Events (# of genes) Number of Non-conserved Cassette Splicing Events (# of genes) Number of genes with at least one conserved isoform
spotted gar 1726 (1330) 3447 (2513) 3320
zebrafish 1729 (1317) 3373 (2495) 3297
fugu 1660 (1275) 3334 (2438) 3224
coelacanth 1605 (1294) 3689 (2629) 3399
human 2860 (2091) 3535 (2579) 3902

Splicing Event Conservation:

upset(fromList(listInput), nsets = 5, order.by = "freq")

19 cassette splicing events that are conserved in all 5 fish species (not human)
17 genes have cassette splicing events that are conserved in all 5 fish species (not human)
1015 cassette splicing events are conserved in all 5 fish species and human
831 (20.2%) genes have cassette splicing events that are conserved in all 5 fish species and human
2344 cassette splicing events from 1753 are conserved in at least one fish species