SPTEdb: a database for transposable elements in salicaceous plants
作 者：易飞，贾子瑞，肖遥，麻文俊，王军辉
期刊名称：DATABASE
影响因子：3.755
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论文摘要：
Abstract
Although transposable elements (TEs) play significant roles in structural, functional and
evolutionary dynamics of the salicaceous plants genome and the accurate identification,
definition and classification of TEs are still inadequate. In this study, we identified 18 393
TEs from Populus trichocarpa, Populus euphratica and Salix suchowensis using a combination
of signature-based, similarity-based and De novo method, and annotated them
into 1621 families. A comprehensive and user-friendly web-based database, SPTEdb,
was constructed and served for researchers. SPTEdb enables users to browse, retrieve
and download the TEs sequences from the database. Meanwhile, several analysis tools,
including BLAST, HMMER, GetORF and Cut sequence, were also integrated into SPTEdb
to help users to mine the TEs data easily and effectively. In summary, SPTEdb will facilitate
the study of TEs biology and functional genomics in salicaceous plants.