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tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences

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Gene Prediction

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1962))

Abstract

Transfer RNAs are the largest, most complex non-coding RNA family, universal to all living organisms. tRNAscan-SE has been the de facto tool for predicting tRNA genes in whole genomes. The newly developed version 2.0 has incorporated advanced methodologies with improved probabilistic search software and a suite of new gene models, enabling better functional classification of predicted genes. This chapter describes the use of the UNIX command-driven and online web versions, illustrating different search modes and options.

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Author information

Authors and Affiliations

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

    Patricia P. Chan & Todd M. Lowe

Authors
  1. Patricia P. Chan
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  2. Todd M. Lowe
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Corresponding author

Correspondence to Todd M. Lowe .

Editor information

Editors and Affiliations

  1. Group Systems Biology of Motor Proteins, Department NMR-based Structural Biology, Max-Planck-Institute for Biophysical Chemistry, Goettingen, Germany

    Martin Kollmar

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Chan, P.P., Lowe, T.M. (2019). tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences. In: Kollmar, M. (eds) Gene Prediction. Methods in Molecular Biology, vol 1962. Humana, New York, NY. https://doi.org/10.1007/978-1-4939-9173-0_1

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  • DOI: https://doi.org/10.1007/978-1-4939-9173-0_1

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-4939-9172-3

  • Online ISBN: 978-1-4939-9173-0

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