Figure 4

Community implementation of yrGATE at the PlantGDB Arabidopsis genome browser, AtGDB, for correction of a public annotation and for alternative splicing. This two-window screenshot depicts yrGATE annotations in the AtGDB browser. The outer window contains a genome context view of AtGDB, which has links to the yrGATE Annotation Tool and to AtGDB's Transcript View (1). The inner window contains the Transcript View, which presents a genome context graphic and sequence alignments represented in the graphic. The graphic has the following color assignments: yrGATE annotations, green; the public annotation, blue; cDNAs, light blue; ESTs, red; annotation protein coding regions, green and red triangles. The multiple sequence alignment in the lower panel of the Transcript View corresponds to the region of graphic contained within the green rectangle (2). The first exon (3) of the public annotation, At1g80810.1, is not supported by expressed sequence evidence, which instead suggests a downstream exon. There are two yrGATE community annotations, yrGATE-At1g80810-1 and yrGATE-At1g80810-2, both of which contain the first exon supported by the evidence but differ at the 3'-end, because the evidence suggests two alternatives for exon 11 (as seen in the multiple alignment display (4)).