Gene Model Annotations for Drosophila melanogaster: The Rule-Benders.
Gene Model Annotations for Drosophila melanogaster: The Rule-Benders.
复制标题
DOI：
10.1534/g3.115.018937
复制
发表时间：
2015-06-24
期刊：
影响因子：
--
通讯作者：
FlyBase Consortium
中科院分区：
文献类型：
--
作者：
Crosby MA;Gramates LS;Dos Santos G;Matthews BB;St Pierre SE;Zhou P;Schroeder AJ;Falls K;Emmert DB;Russo SM;Gelbart WM;FlyBase Consortium
在果蝇FlyBase注释基因模型的背景下，我们描述了我们从文献中挑选或在FlyBase分析过程中确定的许多例外情况。从非典型但常见的例子，如双顺反子和多顺反子转录本，非正则剪接，反式剪接转录本，非正则翻译开始，停止密码子通读，到单个例外情况，如核糖体移码和HAC1型内含子加工。在FlyBase中，特殊基因和转录本用序列本体论术语和/或标准化注释来标记。由于某些规则折弯器会给高吞吐量数据的处理程序带来问题，因此我们将讨论在批量数据下载中标记这些情况的计划。
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.