Open AccessGene Model Annotations forDrosophila melanogaster: The Rule-Benders
Author(s) -
Madeline A. Crosby,
L. Sian Gramates,
Gilberto dos Santos,
Beverley B Matthews,
Susan E. St. Pierre,
Pinglei Zhou,
Andrew J. Schroeder,
Kathleen Falls,
David Emmert,
Susan Russo,
William M Gelbart
Publication year - 2015
Publication title -
g3 genes genomes genetics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.468
H-Index - 66
ISSN - 2160-1836
DOI - 10.1534/g3.115.018937
Subject(s) - drosophila melanogaster , context (archaeology) , translational frameshift , biology , genetics , gene , melanogaster , computational biology , intron , translation (biology) , messenger rna , paleontology
In the context of the FlyBase annotated gene models in Drosophila melanogaster, we describe the many exceptional cases we have curated from the literature or identified in the course of FlyBase analysis. These range from atypical but common examples such as dicistronic and polycistronic transcripts, noncanonical splices, trans-spliced transcripts, noncanonical translation starts, and stop-codon readthroughs, to single exceptional cases such as ribosomal frameshifting and HAC1-type intron processing. In FlyBase, exceptional genes and transcripts are flagged with Sequence Ontology terms and/or standardized comments. Because some of the rule-benders create problems for handlers of high-throughput data, we discuss plans for flagging these cases in bulk data downloads.
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