Drabenstot Scott D, Kupfer Doris M, White James D, Dyer David W, Roe Bruce A, Buchanan Kent L, Murphy Juneann W
Department of Microbiology and Immunology, University of Oklahoma Health Sciences Center, PO Box 26901, BMSB 1053, Oklahoma City, OK 73190, USA.
Nucleic Acids Res. 2003 Nov 15;31(22):e141. doi: 10.1093/nar/gng141.
FELINES (Finding and Examining Lots of Intron 'N' Exon Sequences) is a utility written to automate construction and analysis of high quality intron and exon sequence databases produced from EST (expressed sequence tag) to genomic sequence alignments. We demonstrated the various programs of the FELINES utility by creating intron and exon sequence databases for the fungal organism Schizosaccharomyces pombe from alignments of EST to genomic sequences. In addition, we analyzed our constructed S.pombe sequence databases and the well-established Saccharomyces cerevisiae intron database from Manuel Ares' Laboratory for conserved sequence motifs. FELINES was shown to be useful for characterizing branchsites, polypyrimidine tracts and 5' and 3' splice sites in the intron databases and exonic splicing enhancers (ESEs) in S.pombe exons. FELINES is available at http://www.genome.ou.edu/informatics.html.
FELINES(查找和检查大量内含子和外显子序列)是一个实用程序,用于自动构建和分析从EST(表达序列标签)到基因组序列比对产生的高质量内含子和外显子序列数据库。我们通过从EST与基因组序列的比对中为真菌粟酒裂殖酵母创建内含子和外显子序列数据库,展示了FELINES实用程序的各种程序。此外,我们分析了我们构建的粟酒裂殖酵母序列数据库以及来自曼努埃尔·阿雷斯实验室的成熟的酿酒酵母内含子数据库中的保守序列基序。结果表明,FELINES可用于在粟酒裂殖酵母内含子数据库中表征分支位点、多嘧啶序列以及5'和3'剪接位点,以及在粟酒裂殖酵母外显子中表征外显子剪接增强子(ESE)。可在http://www.genome.ou.edu/informatics.html获取FELINES。