Exploration of RNA-Guided Recombinase Target Sites for Hyperactivated Recombinase Beta in Bovine Genome 

DOI: 10.18805/ijar.B-3880    | Article Id: B-3880 | Page : 1086-1097
Citation :- Exploration of RNA-Guided Recombinase Target Sites for Hyperactivated Recombinase Beta in Bovine Genome.Indian Journal Of Animal Research.2020.(54):1086-1097
Shalu Kumari Pathak, Arvind Sonwane and Subodh Kumar skpathakvet@gmail.com
Address : ICAR- Indian Veterinary Research Institute, Animal Genetics, Bareilly-243 122, Uttar Pradesh, India. 
Submitted Date : 11-07-2019
Accepted Date : 14-08-2019

Abstract

RNA-guided recombinases (RGR) are potentially valuable tools for basic research and genetic modifications. The platform has been demonstrated to do genome editing efficiently. The platform operates on a typical recognition site comprised of the degenerate recombinase site, a 5 to 6-base pair spacer flanking it and this whole central region is flanked by two guide RNA-specified DNA sequences or Cas9 binding sites which is followed by protospacer adjacent motifs. In present investigation, a detailed map of target sites for RNA-guided recombinase platforms based on hyperactivated recombinase Beta throughout the bovine genome was prepared. For this, Chromosome wise whole genomic sequence data was retrieved from Ensembl followed by designing search pattern for recombinase Beta with spacer length five. By using this search pattern, RGR target sites were located by using dreg program of Emboss package. In total,436 RGR target sites were identified in bovine genome for recombinase Beta with spacer length five. These RGR target site provide potential of being utilized for specific genomic integration, deletion or inversion.

Keywords

Bovine genome Dreg Emboss Hyperactivated recombinase Beta RNA guided recombinase target sites

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