<p>This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.</p> <p>Discrepancies in gene and orphan number indicated by previous analyses suggest that
<italic>S. cerevisiae</italic> would benefit from a consistent re-annotation. In this analysis three new genes
are identified and 46 alterations to gene coordinates are described. 370 ORFs are defined
as totally spurious ORFs which should be disregarded. At least a further 193 genes could
be described as very hypothetical, based on a number of criteria.
It was found that disparate genes with sequence overlaps over ten amino acids (especially
at the N-terminus) are rare in both S. <italic>cerevisiae</italic> and <italic>Sz.</italic> pombe. A new S. <italic>cerevisiae</italic> gene
number estimate with an upper limit of 5804 is proposed, but after the removal of very
hypothetical genes and pseudogenes this is reduced to 5570. Although this is likely to be
closer to the true upper limit, it is still predicted to be an overestimate of gene number. A
complete list of revised gene coordinates is available from the Sanger Centre (<italic>S. cerevisiae</italic>
reannotation: ftp://ftp/pub/yeast/SCreannotation).</p>
[]
Comp Funct Genomics. 2001 Jun; 2(3):143-154