title: Determination and analysis of the pre-mRNA cleavage sites in Arabidopsis.
abstract: Alignment of the Arabidopsis cDNA to genome DNA sequences revealed that approximately half of the mRNAs were found to contain 3' non-templated nucleotide addition prior to the poly(A) sequence. These findings suggest that we can more precisely determine the cleavage sites. Based on the nucleotide downstream of cleavage sites, we are able to derive a hierarchy of cleavage preferences A>>U>C>>G. Interestingly, the completely different hierarchy of preferences was derived to be U>>A>>G>C, based on the nucleotide upstream of cleavage sites. Dinucleotide AU is the most preferred composition for cleavage. The determination of the cleavage sites and systematical analysis can help in the enhancement of 3'-processing site prediction and mechanistic understanding of 3'-end processing in plant.
authors.affiliation: Institute of Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, PR China. jinyf@zju.edu.cn <jinyf@zju.edu.cn>
authors.forename: Yongfeng
authors.initials: Y
authors.lastname: Jin
authors.forename: Yinghao
authors.initials: Y
authors.lastname: Chen
authors.forename: Zhaohui
authors.initials: Z
authors.lastname: Gong
mesh_terms: D017360:Arabidopsis / Q000235:genetics*; D012322:RNA Precursors / Q000235:genetics*; D022821:RNA Splice Sites / Q000235:genetics*; D017423:Sequence Analysis, RNA
chemical_list: D012322:RNA Precursors; D022821:RNA Splice Sites