Title |
A pipeline of programs for collecting and analyzing group II intron retroelement sequences from GenBank
|
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Published in |
Mobile DNA, December 2013
|
DOI | 10.1186/1759-8753-4-28 |
Pubmed ID | |
Authors |
Michael Abebe, Manuel A Candales, Adrian Duong, Keyar S Hood, Tony Li, Ryan A E Neufeld, Abat Shakenov, Runda Sun, Li Wu, Ashley M Jarding, Cameron Semper, Steven Zimmerly |
Abstract |
Accurate and complete identification of mobile elements is a challenging task in the current era of sequencing, given their large numbers and frequent truncations. Group II intron retroelements, which consist of a ribozyme and an intron-encoded protein (IEP), are usually identified in bacterial genomes through their IEP; however, the RNA component that defines the intron boundaries is often difficult to identify because of a lack of strong sequence conservation corresponding to the RNA structure. Compounding the problem of boundary definition is the fact that a majority of group II intron copies in bacteria are truncated. |
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