期刊
RNA BIOLOGY
卷 14, 期 8, 页码 1055-1063出版社
TAYLOR & FRANCIS INC
DOI: 10.1080/15476286.2016.1245268
关键词
Alternative circularization; circular RNAs; full-length circRNAs; rice; splicing signals
资金
- National Basic Research Program of China [2015CB150200]
- National Science Foundation of China [91435111, 31521064]
- Shanghai Municipal Commission of Agriculture [2014-7-1-4]
Circular RNAs (circRNAs) have been identified in diverse eukaryotic species and are characterized by RNA backsplicing events. Current available methods for circRNA identification are able to determine the start and end locations of circRNAs in the genome but not their full-length sequences. In this study, we developed a method to assemble the full-length sequences of circRNAs using the backsplicing RNA-Seq reads and their corresponding paired-end reads. By applying the method to an rRNA-depleted/RNase R-treated RNA-Seq dataset, we for the first time identified full-length sequences of nearly 3,000 circRNAs in rice. We further showed that alternative circularization of circRNA is a common feature in rice and, surprisingly, found that the junction sites of a large number of rice circRNAs are flanked by diverse non-GT/AG splicing signals while most human exonic circRNAs are flanked by canonical GT/AG splicing signals. Our study provides a method for genome-wide identification of full-length circRNAs and expands our understanding of splicing signals of circRNAs.
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