Annotation of the rolled gene. Results from the computational annotation pipeline for the portion of WGS3 scaffold 211000022279977 containing the rolled gene are displayed in Apollo. Evidence (black panels) used to annotate gene models (light blue panels) is shown. Evidence for gene models includes alignments of BLASTX results (red), cDNA sequences (green), and results of gene prediction (lavender). The curated structure of two rolled transcript models is defined by cDNA sequences. The Release 2 annotation (blue) did not include a complete rolled gene model. The predicted start (green) and stop (red) codons are indicated in the gene models. (a) In the annotation of the WGS3 masked sequence, in which transposable elements were removed, the Genscan prediction and the BLASTX results are consistent with the curated gene structure. The BLASTX evidence in the 3' intron of rolled identifies an unmasked transposable element (yellow arrow). (b) In the unmasked WGS3 sequence, which includes known transposable elements (purple), Genscan fails to predict the first five exons of rolled, predicts two gene models within transposable elements, and adds three spurious exons to an inaccurate rolled gene model.
Hoskins et al. Genome Biology 2002 3:research0085.1-0085.16 doi:10.1186/gb-2002-3-12-research0085