Motivation: Group I introns are one of the most widely studied ribozymes. Since their initial discovery, a large number of them have been identified experimentally or computationally. However, no comprehensive and unified database that provides group I intron sequences with precise boundaries and structural information is available.
Results: We created a new database of group I intron sequences with reliable exon-intron boundaries. The database offers additional data for each sequence, such as containing GenBank entry, its position within the associated entry, the subtype of each intron and putative homing endonucleases. Secondary structure predictions and base-pairing probability matrixes are also provided for each sequence. The resource is expected to facilitate large-scale studies of group I introns, as well as engineering for novel applications.
Availability And Implementation: The database, as well as the code to generate it and a GUI to facilitate its exploration, are available at https://github.com/LaraSellesVidal/Group1IntronDatabase. The source code for the GUI implementation is available at https://github.com/LaraSellesVidal/OnlineGroup1IntronDatabase. The database can also be accessed online at https://online-group-1-intron-database.onrender.com. Base-pairing probability matrixes are available separately at https://www.ebi.ac.uk/biostudies/studies/S-BSST1399.
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| http://dx.doi.org/10.1093/bioadv/vbaf020 | DOI Listing |
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