IRESbase:A Comprehensive Database of Experimentally Validated Internal Ribosome Entry Sites
- Author:
Zhao JIAN
1
;
Li YAN
;
Wang CONG
;
Zhang HAOTIAN
;
Zhang HAO
;
Jiang BIN
;
Guo XUEJIANG
;
Song XIAOFENG
Author Information
1. Department of Biomedical Engineering, Nanjing University of Aeronautics and Astronautics, Nanjing 211106, China
- Keywords:
IRES;
Circular RNA;
Long non-coding RNA;
Eukaryotic IRES;
Viral IRES
- From:
Genomics, Proteomics & Bioinformatics
2020;18(2):129-139
- CountryChina
- Language:Chinese
-
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 nucleo-tides. By mapping IRESs to human circRNAs and long non-coding RNAs (lncRNAs), 2191 cir-cRNAs 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.
