For this database, alternative splicing events from Swissprot
have systematically been mapped onto protein structures. Protein structure assignments
for all Swissprot entries with alternative splicing annotation (VARSPLIC) are made
using BLAST and alignments are computed using standard free-shift alignment (PAM250
Matrix, Gap Open: -11, Gap Extend: -1). Only Swissprot entries that can be modelled with
a very high confidence, namely whose sequence identity with the target is above 60%
are taken into account. This results in 367 Swissprot proteins and 488 splicing isoforms.
The splicing events then have been categorized into different classes with
respect to their secondary structure content and the location of the secondary structure
elements either at internal or peripheral parts of a beta sheet. Furthermore, the events
have been categorized if they affect conserved or variable regions of a protein chain.
How to view an isoform
- To view the splicing events on the protein structure, please click on a link below.
- The structure will be visualized with Jmol so please make sure that Java is installed and running on your system.
- Deletion events are colored in red, substitutions (same length) in green, insertions (replacement longer than original sequence) in yellow and replacements where the original sequence is longer than the replaced one in pink