Drosophila genomic sequence annotation using the BLOCKS+ database.
A simple and general homology-based method for gene finding was applied to the 2.9-Mb Drosophila melanogaster Adh region, the target sequence of the Genome Annotation Assessment Project (GASP). Each strand of the entire sequence was used as query of the BLOCKS+ database of conserved regions of proteins. This led to functional assignments for more than one-third of the genes and two-thirds of the transposons. Considering the enormous size of the query, the fact that only two false-positive matches were reported emphasizes the high selectivity of protein family-based methods for gene finding. We used the search results to improve BLOCKS+ by identifying compositionally biased blocks. Our results confirm that protein family databases can be used effectively in automated sequence annotation efforts.
Henikoff
J G
JG
Howard Hughes Medical Institute, Seattle, Washington 98109-1024, USA.
Henikoff
S
S
D000426:Alcohol Dehydrogenase / Q000235:genetics; D000818:Animals; D019295:Computational Biology; D016208:Databases, Factual; D004331:Drosophila melanogaster / Q000201:enzymology / Q000235:genetics*; D017344:Genes, Insect / Q000235:genetics; D016678:Genome; D012689:Sequence Homology, Nucleic Acid; D012984:Software
D000426:Alcohol Dehydrogenase