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Integrative analysis of Arabidopsis thaliana transcriptomics reveals intuitive splicing mechanism for circular RNA
Author(s) -
Sun Xiaoyong,
Wang Lin,
Ding Jiechao,
Wang Yanru,
Wang Jiansheng,
Zhang Xiaoyang,
Che Yulei,
Liu Ziwei,
Zhang Xinran,
Ye Jiazhen,
Wang Jie,
Sablok Gaurav,
Deng Zhiping,
Zhao Hongwei
Publication year - 2016
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1002/1873-3468.12440
Subject(s) - intron , circular rna , rna splicing , biology , arabidopsis , arabidopsis thaliana , rnase p , rna , computational biology , genetics , splice , non coding rna , alternative splicing , gene , transcriptome , gene expression , messenger rna , mutant
A new regulatory class of small endogenous RNAs called circular RNAs (circRNAs) has been described as miRNA sponges in animals. Using 16 Arabidopsis thaliana RNA‐Seq data sets, we identified 803 circRNAs in RNase R‐/non‐RNase R‐treated samples. The results revealed the following features: Canonical and noncanonical splicing can generate circRNAs; chloroplasts are a hotspot for circRNA generation; furthermore, limited complementary sequences exist not only in introns, but also in the sequences flanking splice sites. The latter finding suggests that multiple combinations between complementary sequences may facilitate the formation of the circular structure. Our results contribute to a better understanding of this novel class of plant circRNAs.