This site contains information about the spliceosomal
introns of the yeast Saccharomyces cerevisiae. Introns present
special problems for the annotation of eukaryotic genomes. Splice
sites are information-poor, and their recognition by the splicing apparatus
is highly context-dependent and regulated, making identification by computational
gene prediction programs a challenge. At present we do not understand
splice site context well enough to predict which potential splice sites
will be used, and thus how the genomic sequences will be expressed.
Understanding the how and why of introns
will require genome level information about splicing. One element
of this will involve understanding splicing patterns and how they are
regulated globally. Another element will involve understanding how
splicing patterns change during evolution. To begin we study yeast,
since it has the simplest known eukaryotic genome. In these pages
we have listed known spliceosomal introns in the yeast genome and documented
the splice sites actually used. Through the use of microarrays designed
to monitor splicing, we are beginning to identify and analyze splice site
context in terms of the nature and activities of the trans-acting factors
that mediate splice site recognition.
In this edition (version 3.0), we include expression
data that relates to the efficiency of splicing relative to other processes
in strains of yeast lacking nonessential splicing factors. These
data are displayed on each intron page for browsing and can be downloaded
for other types of analysis.
We encourage corrections or additions to this site.
We are no longer supporting the earlier versions of the site. Please
contact Manny Ares with questions or comments. The documents below may
provide useful literature references on this topic.
Grate, L., and Ares, M. (2002) Searching Yeast Intron Data at the
Areslab Website. (In Guide to Yeast Genetics and Molecular and Cell
Biology, Part B, C. Guthrie and G. Fink, eds) Methods Enz.
350: 380-392. [
Clark, T., Sugnet, C., and Ares, M. (2002) Genomewide analysis of
mRNA processing in yeast using splicing-specific microarrays. Science
Davis, C., Grate L., Spingola, M., and Ares, M. (2000) Test of intron
predictions reveals novel splice sites, alternatively spliced mRNAs and
new introns in meiotically regulated genes of yeast. Nucl. Acids Res.
28: 1700-1706. [
Ares, M., Grate, L., and Pauling, M. H. (1999) A handful of intron-containing
genes produce the lion’s share of yeast mRNA. RNA 5:1138-1139.
Spingola, M., Grate, L., Haussler, D., and Ares, M. (1999)
Genome-wide bioinformatic and molecular analysis of yeast introns.
RNA 5: 221-34. [
Page last updated July 5, 2002