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Overall, although our findings are predictions, the present survey of evolutionary conserved structured RNA motifs in yeast genomes suggests widespread and diverse functions for structured RNAs in these organisms that we are only beginning to understand.
We discover conserved structured elements in 35% of UTRs, several of which we validate as novel protein binding motifs.
In order to obtain a high-quality set of predictions for subsequent experimental verification, our prediction set was further reduced by applying the following stringent filters (similar to the "HighConf" filters used by EvoFold for [28]) to the maximum-likelihood conserved structured predicted by our model.
It is conceivable that similar RNA motifs are embedded in larger, conserved structured regions that can be detected by RNAz.
A comparative genomics analysis of seven different yeast species identified a substantial number of evolutionarily conserved, structured ncRNAs, suggesting their roles in post-transcriptional regulation [ 20].
To produce a set of predictions enriched for both novel and known ncRNAs, we located overlapping regions of a conserved, structured RNA-like and an unbiased transcription annotation.
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Moreover, despite a lack of strong sequence conservation, bidirectional promoters exhibit conserved structure across species, which will undoubtedly be helpful in tracing evolutionary and species-specific events.
To detect conserved structure elements for the two sequences, a pairwise structural comparison is performed.
This is a microtubule-based, highly organized, and conserved structure composed by more than 250 kinds of proteins.
Furthermore, based on the results of ESI MS/MS, RBUP shared 69% amino acid sequence similarity with ubiquitin, which indicates possession of a highly conserved structure.
The ventral tegmental area (VTA) is an evolutionarily conserved structure that has roles in reward-seeking, safety-seeking, learning, motivation, and neuropsychiatric disorders such as addiction and depression.
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