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RNA localisation is an important mode of delivering proteins to their site of function. Cis-acting signals within the RNAs, which can be thought of as zip-codes, determine the site of localisation. There are few examples of fully characterised RNA signals, but the signals are thought to be defined through a combination of primary, secondary, and tertiary structures. In this chapter, we describe a selection of computational methods for predicting RNA secondary structure, identifying localisation signals, and searching for similar localisation signals on a genome-wide scale. The chapter is aimed at the biologist rather than presenting the details of each of the individual methods.

Original publication




Journal article


Methods Mol Biol

Publication Date





447 - 466


Base Sequence, Computational Biology, Conserved Sequence, Intracellular Space, Molecular Sequence Data, Nucleic Acid Conformation, RNA, RNA Transport, RNA, Messenger, RNA-Binding Proteins, Repetitive Sequences, Nucleic Acid, Sequence Alignment, Sequence Homology, Nucleic Acid