In or Out? New Insights on Exon Recognition through Splice-Site Interdependency
نویسندگان
چکیده
منابع مشابه
New Methods for Splice Site Recognition
Splice sites are locations in DNA which separate protein-coding regions (exons) from noncoding regions (introns). Accurate splice site detectors thus form important components of computational gene finders. We pose splice site recognition as a classification problem with the classifier learnt from a labeled data set consisting of only local information around the potential splice site. Note tha...
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Studies throughout the years revealed several characteristics that differentiate alternative exons from constitutive ones. However, some of those characteristics, such as splice signals and other regulatory sequences, are inherently sequence-based. Herein we show that these characteristics are heavily biased by GC content, and may not actually differ between alternative and constitutive exons. ...
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Letter to the Editor introns one nucleotide long), we obtained 214 introns in solely by computer prediction; however, their presence or absence does not alter the conclusions of the from Genomic Analysis analysis.) Table 1 shows the nucleotide pattern for the 10 exon sites that flank each intron. A quantitative measure of Saccharomyces cerevisiae is an excellent model system conservation is the...
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Accurate alternative splice site (ASS) recognition is an important and difficult topic in the gene identification, and the average recognition rate is still ,85% [1]. Many statistical pattern recognition methods, such as neural networks (NNs) and support vector machine (SVM), were used for this task [2,3]. Among them, SVM can construct a good highdimensional learning model in the case of limite...
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When eukaryotic genes are edited by the spliceosome, the first step in intron recognition is the binding of a U1 small nuclear RNA with the donor ( 5(') ) splice site. We model this interaction thermodynamically to identify splice sites. Applied to a set of 65 annotated genes, our "finding with binding" method achieves a significant separation between real and false sites. Analyzing binding pat...
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ژورنال
عنوان ژورنال: International Journal of Molecular Sciences
سال: 2020
ISSN: 1422-0067
DOI: 10.3390/ijms21072300