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The code within the code: MicroRNAs target coding regions.

机译：代码中的代码：MicroRNA靶向编码区域。

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摘要

The coding sequence of a protein must contain the information required for the canonical amino acid sequence. However, the redundancy of the genetic code creates potential for embedding other types of information within coding regions as well. In a genome-wide computational screen for functional motifs within coding regions based on evolutionary conservation, highly conserved motifs included some expected motifs, some novel motifs and coding region target sites for known microRNAs, which are generally presumed to target 3' untranslated regions (UTRs) (www.SiteSifter.org). We report here an analysis of published proteomics experiments that further support a functional role for coding region microRNA binding sites, though the effects are weaker than for sites in the 3' UTR. We also demonstrate a positional bias with greater conservation for sites at the end of the coding region, and the beginning and end of the 3' UTR. An increased effectiveness of microRNA binding sites at the 3' end of transcripts could reflect proximity to the poly(A) tail or interactions with the 5' terminal (7)mGpppN "cap", which is physically adjacent to this region once the message is circularized. The effectiveness of 3' UTR sites could reflect a cooperative role for RNA binding proteins. Finally, increased microRNA conservation near the stop codon suggests to us the possible involvement of proteins that execute nonsense-mediated decay, since this process is activated by tagging of termination codons with factors that induce transcript degradation.
机译：蛋白质的编码序列必须包含规范氨基酸序列所需的信息。然而，遗传密码的冗余也为在编码区域内嵌入其他类型的信息创造了潜力。在基于进化保守性的编码区域内功能基序的全基因组计算筛选中，高度保守的基序包括一些预期的基序，一些新颖的基序和已知microRNA的编码区靶位点，这些位点通常被认为靶向3'非翻译区（UTRs） ）（www.SiteSifter.org）。我们在这里报告对已发表的蛋白质组学实验的分析，该实验进一步支持编码区域microRNA结合位点的功能，尽管其作用比3'UTR中的位点弱。我们还证明了在编码区域末端以及3'UTR末端和末端的位点具有更大的保守性。转录物3'末端的microRNA结合位点有效性提高，可能反映了与poly（A）尾部的接近或与5'末端（7）mGpppN“ cap”的相互作用，该5'末端在信息附近与该区域物理相邻循环化。 3'UTR位点的有效性可能反映了RNA结合蛋白的协同作用。最后，在终止密码子附近增加的microRNA保守性向我们暗示了可能进行无意义介导的衰变的蛋白质的参与，因为此过程是通过标记终止密码子并诱导转录物降解的因子激活的。

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