Paper Info
Title
IRESbase: A Comprehensive Database of Experimentally Validated Internal Ribosome Entry Sites
Abstract
Internal ribosome entry sites (IRESs) are functional RNA elements that can directly recruit ribosomes to an internal position of the mRNA in a cap-independent manner to initiate translation. Recently, IRES elements have attracted much attention for their critical roles in various processes including translation initiation of a new type of RNA, circular RNA (circRNA), with no 5′ cap to support classical cap-dependent translation. Thus, an integrative data resource of IRES elements with experimental evidence will be useful for further studies. In this study, we present IRESbase, a comprehensive database of IRESs, by curating the experimentally validated functional minimal IRES elements from literature and annotating their host linear and circular RNAs. The current version of IRESbase contains 1328 IRESs, including 774 eukaryotic IRESs and 554 viral IRESs from 11 eukaryotic organisms and 198 viruses, respectively. As IRESbase collects only IRES of minimal length with functional evidence, the median length of IRESs in IRESbase is 174 nucleotides. By mapping IRESs to human circRNAs and long non-coding RNAs (lncRNAs), 2191 circRNAs and 168 lncRNAs were found to contain at least one entire or partial IRES sequence. IRESbase is available at http://reprod.njmu.edu.cn/cgi-bin/iresbase/index.php.
Year
DOI
Venue
2020
10.1016/j.gpb.2020.03.001
Genomics, Proteomics & Bioinformatics
Keywords
DocType
Volume
IRES,Circular RNA,Long non-coding RNA,Eukaryotic IRES,Viral IRES
Journal
18
Issue
ISSN
Citations 
2
1672-0229
0
PageRank 
References 
Authors
0.34
0
8
Name
Order
Citations
PageRank
Jian Zhao100.34
Yan Li233019.85
Cong Wang300.34
Haotian Zhang400.34
Hao Zhang520758.59
Bin Jiang62540191.98
Xuejiang Guo702.37
Xiaofeng Song83210.06