拟南芥外显子连接序列上最佳匹配片段的偏好  

Biases of the Optimal Matching Segments on Exon-exon Sequences of Arabidopsis thaliana

作　　者：张强 赵小庆 薄素玲[4] 曹艳娟 苏文霞 ZHANG Qiang;ZHAO Xiao-qing;BO Su-ling;CAO Yan-juan;SU Wen-xia(College of Science,Inner Mongolia Agricultural University,Hohhot 010018,China;Inner Mongolia Academy of Agricultural&Animal Husbandry Sciences,Hohhot 010031,China;School of Physical Science and Technology,Inner Mongolia University,Hohhot 010021,China;College of Computer and Information,Inner Mongolia Medical University,Hohhot 010010,China)

机构地区：[1]内蒙古农业大学理学院,呼和浩特010018 [2]内蒙古自治区农牧业科学院,呼和浩特010031 [3]内蒙古大学物理科学与技术学院,呼和浩特010021 [4]内蒙古医科大学计算机信息学院,呼和浩特010010

出　　处：《内蒙古大学学报（自然科学版）》2020年第2期148-153,共6页Journal of Inner Mongolia University：Natural Science Edition

基　　金：内蒙古农业大学基础学科科研启动基金(JC2017003);国家自然科学基金(11747084);内蒙古自然科学基金(2018BS03001);内蒙古农业大学博士科研启动基金(NDYB2016-13)。

摘　　要：内含子序列通过与相应mRNA序列的匹配参与基因表达调控。采用Smith-Waterman局部比对方法,以拟南芥全基因组基因序列为基础,获得了内含子序列与其对应的外显子连接序列的最佳匹配片段。为了揭示两者之间的序列匹配特征,给出匹配频率在外显子序列上的分布。研究发现,匹配频率分布在外显子的边界存在显著差异,长内含子序列和第一个内含子序列对外显子连接序列的分布偏好明显区别于其他内含子序列。对于长片段、低GC含量以及高配对率的最佳匹配片段在外显子连接序列上游EJC(exon-exon junction complex)结合区域分布有明显的最小值。结果显示内含子序列和编码序列存在共同进化关系。Intron sequences involve gene expression and regulation by matching with the corresponding mRNA sequences.Based on the A.thalianagenome sequence,the Smith-Waterman local alignment method was used to obtain the optimal matching segments between intron sequences and the corresponding exonexon sequences.In order to reveal the sequence matching characteristics of the two sequences referred above,their distributions of matching frequency were analyzed on exon-exon sequences.The analysis points out that the matching frequency distribution has a distinct difference on exons’ boundary.The long introns and the first introns have different biases of distribution on exon-exon from other introns.In regard to long segments,segements with low GC content and segments with high match rate,their optimal matching segments exist an obvious minimum on EJC binding region of upstream exons.Results show that intron sequences are co-evolutionary with coding sequences.

关 键 词：内含子序列 外显子连接序列 序列比对 外显子连接复合物(EJC) 最佳匹配片段 

分 类 号：Q61[生物学—生物物理学]