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RNA Biol. 2012 Sep;9(9):1155-60. doi: 10.4161/rna.21502. Epub 2012 Sep 1.

Modeling the Thermoproteaceae RNase P RNA.

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Department of Biomolecular Engineering, University of California Santa Cruz, CA, USA.


The RNA component of the RNase P complex is found throughout most branches of the tree of life and is principally responsible for removing the 5' leader sequence from pre-tRNA transcripts during tRNA maturation. RNase P RNA has a number of universal core features, however variations in sequence and structure found in homologs across the tree of life require multiple Rfam covariance search models to detect accurately. We describe a new Rfam search model to enable efficient detection of the diminutive archaeal Type T RNase P RNAs, which are missed by existing Rfam models. Using the new model, we establish effective score detection thresholds, and detect four new RNase P RNA genes in recently completed genomes from the crenarchaeal family Thermoproteaceae.

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