Bioinformatic Identification of Homing Endonucleases and Their Target Sites

  • Eyal Privman
Part of the Methods in Molecular Biology book series (MIMB, volume 1123)


Homing endonuclease genes (HEGs) are a large, phylogenetically diverse superfamily of enzymes with high specificity for especially long target sites. The public genomic sequence databases contain thousands of HEGs. This is a large and diverse arsenal of potential genome editing tools. To make use of this natural resource, one needs to identify candidate HEGs. Due to their special relationship with a host gene, it is also possible to predict their cognate target sequences. Here I describe the HomeBase algorithm that was developed to this end. A detailed description of the computational pipeline is provided with emphasis on technical and methodological caveats of the approach.

Key words

Homing endonucleases Homology search Target-site prediction HomeBase 


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Copyright information

© Springer Science+Business Media New York 2014

Authors and Affiliations

  • Eyal Privman
    • 1
  1. 1.Institute of Evolution and Department of Evolutionary and Environmental BiologyUniversity of HaifaHaifaIsrael

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