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首页> 外文期刊>Journal of Bioinformatics and Computational Biology >CHARACTERIZATION OF THE SPLICE SITES IN GT-AG AND GC-AG INTRONS IN HIGHER EUKARYOTES USING FULL-LENGTH cDNAs
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CHARACTERIZATION OF THE SPLICE SITES IN GT-AG AND GC-AG INTRONS IN HIGHER EUKARYOTES USING FULL-LENGTH cDNAs

机译：利用全长cDNA鉴定高等真核生物中GT-AG和GC-AG内含子的位点

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摘要

For the purpose of analyzing the relation between the splice sites and the order of introns, we conducted the following analysis for the GT-AG and GC-AG splice site groups. First, the pre-mRNAs of H. sapiens, M. musculus, D. melanogaster, A. thaliana and O. sativa were sampled by mapping the full-length cDNA to the genomes. Next, the consensus sequences at different regions of pre-mRNAs were analyzed in the five species. We also investigated the mononucleotide and dinucleotide frequencies in the extensive regions around the 5' splice sites (5'ss) and 3' splice sites (3'ss). As a result, differential frequencies of nucleotides at the first 5'ss in both the GT-AG and GC-AG splice site groups were observed in A. thaliana and O. sativa pre-mRNAs. The trend, which indicates that GC 5'ss possess strong consensus sequences, was observed not only in mammalian pre-mRNAs but also in the pre-mRNAs of D. melanogaster, A. thaliana and O. sativa. Furthermore, we examined the consensus sequences of the constitutive and alternative splice sites. It was suggested that in the case of the alternative GC-AG introns, the tendency to have a weak consensus sequence at 5'ss is different between H. sapiens and M. musculus pre-mRNAs.
机译：为了分析剪接位点与内含子顺序之间的关系，我们对GT-AG和GC-AG剪接位点组进行了以下分析。首先，通过将全长cDNA映射到基因组来对智人，小家鼠，黑腹果蝇，拟南芥和苜蓿的前mRNA进行采样。接下来，在五个物种中分析了pre-mRNAs不同区域的共有序列。我们还研究了5'剪接位点（5's）和3'剪接位点（3's）周围广泛区域中的单核苷酸和二核苷酸频率。结果，在拟南芥和苜蓿前体mRNA中观察到了GT-AG和GC-AG剪接位点组的前5个核苷酸的不同频率。不仅在哺乳动物的前mRNA中，而且在黑腹果蝇，拟南芥和苜蓿的前mRNA中也观察到了表明GC 5具有强共有序列的趋势。此外，我们检查了组成和替代剪接位点的共有序列。有人建议，在备选GC-AG内含子的情况下，智人和小家鼠M-前体mRNA在5's处具有弱共有序列的趋势是不同的。

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