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《Hereditas》 2008-09
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Analysis of correlation of local GC level in human protein coding genes

CHEN Xiang-Gui, HU Jun, YANG Xiao School of Bioengineering, Xihua University, Chengdu 610039, China  
GC level is an important feature of genomic composition, which significantly improve our understanding of structure, function and evolution of genes. In this paper, the nonredundant DNA sequence of 7 992 human protein coding genes were retrieved from public database and the local GC level of different sequence regions and correlation between GC levels were analyzed.. The results showed that the GC levels of different sequence regions were strikingly nonuniform. 5′ untranslated regions were of richest GC, with average GC content being 62.5%. 3′-untranslated regions were of poorest GC, with average GC content being 43.97%. GC contents of 3′ flanking sequences profoundly matched the GC levels of DNA large fragments where the genes were located. Although the GC contents of open reading frames (ORFs) were higher than that of intron, 3′ non-translated region and 3′ flanking sequences, high correlation existed among the GC contents of the four regions. Average GC content of the third codon position (GC3) was 58.9%, higher than that of the fist and second posi-tion, and showed high correlation to GC contents of ORFs, with correlation coefficients being 0.91, besides of its significant association with GC contents of intron, 3′-untranslated region and 3′ flanking sequences. Moreover, the linear regression of GC3 against GC contents of 3′ flanking sequences yielded a slope of 1.25. Thus, GC3 was a sensitive indicator for GCchange of local genome. As for 5′ flanking sequences, 5′ untranslated regions, fist and second codon position, however, their GC level exhibited weaker correlation with that of other regions. These results suggest that the third codon positions, introns, 3′-untranslated regions and 3′ flanking sequences may evolve similarly while first and second codon positions, 5′ flanking sequences and 5′ untranslated region were expected to bear more selective stress for holding their functions.
【Fund】: 四川省应用基础研究项目(编号:03JY029-041)资助~~
【CateGory Index】: Q987
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【Citations】
Chinese Journal Full-text Database 6 Hits
1 SHI Xiu Fan, HUANG Jing Fei, LIU Shu Qun, LIU Ci Quan * (Cellular and Molecular Evolutionary Laboratory, Kunming Institute of Zoology, The Chinese Academy of Sciences, Kunming 650223, China);The Features of Synonymous Codon Bias and GC-content Relationship in Human Genes[J];Progress In Biochemistry and Biophysics;2002-03
2 ZHANG Jing 1,2)** , SHI Xiu-Fan 3) ,YANG Heng-Fen 1) ( 1) The Center of Applied Statistics, Yunnan University, Kunming 650091, China; 2) Department of Computer Science, Yunnan University of Finance and Economics, Kunming 650221,China; 3) Key Laboratory of Cellular and Molecular Evolution, Kunmin g Institute of Zoology, The Chinese Academy of Sciences, Kunming 650223, China);Transcription Rates of Yeast Genes Are Influenced by The Distribution of Introns[J];Progress In Biochemistry and Biophysics;2003-06
3 ZHANG Kun-lin2,1, ZHANG Jing1, LUO Jing-chu2(1. Department of Statistics, The Center of Applied Statistics, Yunnan University, Kunming 650091, China; 2. Center of Bioinformatics, College of Life Science and National Laboratory of Protein Engineering and Plant Genetic Engineering, Peking University, Beijing 100871, China);POSSIBLE SHORT- AND LONG-RANGE TRANSCRIPTIONAL SYNERGISTIC REGULATION BETWEEN UPSTREAM REGIONS AND INTRONS IN YEAST GENES[J];Acta Biophysica Sinica;2005-04
4 ZHU Wei; ZHENG Zuo-Hua; YUAN You-Zhong; ZHOU Zong-Xiang; MAO Yu-Min(Institute of Genetics Univ. Fudan State Key Laboratory of Genetic Engineering Shanghai 200433);Correlation Analysis of (G+C)% of Coding Sequence and Thermostability of Xylose Isomerase of Thermophiles[J];ACTA GENETICA SINICA;1999-04
5 FU Qiang 1,2,3,QIAN Min-Ping 3,①,CHEN Liang-Biao 4,ZHU Yu-Xian 1,2,①(1.National Laboratory of Protein Engineering & Plant Genetic Engineering,Peking University,Beijing 100871,China;2.Peking-Yale Joint Center for Plant Molecular Genetics and Agro-Biotechnology,College of Life Sciences,Peking University,Beijing 100871,China;3.College of Mathematical Sciences,Peking University,Beijing 100871,China;4.Institute of Genetics and Developmental Biology,Chinese Academy of Sciences,Beijing 100101,China);Features of Coding and Noncoding Sequences Based on 3-tuple Distributions[J];Acta Genetica Sinica;2005-10
6 WU Xian-Ming1,2, WU Song-Feng2, REN Da-Ming1, ZHU Yun-Ping2, HE Fu-Chu2 1. College of biological science and technology, Shenyang agriculture university, Shenyang 110161, China; 2. Beijing Proteome Research Center, Beijing 102206, China;The analysis method and progress in the study of codon bias[J];Hereditas;2007-04
【Co-citations】
Chinese Journal Full-text Database 10 Hits
1 YANG Xiao(School of Bioengineering, Xihua University, Chengdu 610039 China), HU Jun, et al.;Study on the Relationship Between Exonic Pattern and Codon Bias of Human Protein-coding Gene[J];Journal of Xihua University(Natural Science Edition);2008-02
2 HU Jun1,2),ZHANG Jing1)(1)The Center of Applied Statistics, Yunnan University, Kunming 650091, China;2)The Fundamental Information Engineering College, Yunnan Agricultural University, Kunming 650201, China);Statistical Analysis of Dyad-like Transcriptional Regulatory Sites in The Introns of Yeast Genes[J];Progress In Biochemistry and Biophysics;2004-05
3 ZHANG Kun-Lin1), ZHANG Jing2)**, LUO Jing-Chu1)1)Center of Bioinformatics, College of Life Science and National Laboratory of Protein Engineering and Plant Genetic Engineering, Peking University, Beijing 100871, China;2)Department of Statistics, The Center of Applied Statistics, Yunnan University, Kunming 650091,China);Potential Transcriptional Synergy Between Upstream Regions and Introns of Yeast Genes[J];Progress In Biochemistry and Biophysics;2005-01
4 WANG Xiu-He, ZHANG Jing** (Department of Statistics, Center of Applied Statistics, Yunnan University, Kunming 650091, China);Analysis of Potential Sites in Upstream Regions for Positive Transcriptional Regulation of Yeast Gene[J];Progress In Biochemistry and Biophysics;2005-10
5 HU Jun 1,2 ,YANG Jian-hong 1,2 ,LI Yan 1 ,ZHANG Jing 1 (1.The Center of Applied Statistics,Yunnan University,Kunming650091,China;2. The Fundamental Information Engineering College,Yunnan Agricultural University,K unming650201,China);STATISTICAL ANALYSIS OF POSITIVE TRANSCRIPTIONAL REGULATORY SITES IN THE INT RONS OF YEAST GENES[J];Acta Biophysica Sinica;2004-01
6 ZHANG Kun-lin2,1, ZHANG Jing1, LUO Jing-chu2(1. Department of Statistics, The Center of Applied Statistics, Yunnan University, Kunming 650091, China; 2. Center of Bioinformatics, College of Life Science and National Laboratory of Protein Engineering and Plant Genetic Engineering, Peking University, Beijing 100871, China);POSSIBLE SHORT- AND LONG-RANGE TRANSCRIPTIONAL SYNERGISTIC REGULATION BETWEEN UPSTREAM REGIONS AND INTRONS IN YEAST GENES[J];Acta Biophysica Sinica;2005-04
7 LI Hui-min, ZHANG Jing (School of Mathematics and Statistics, Yunnan University, Kunming 650091, China);CHARACTERISTICS OF PROMOTER SEQUENCES OF RIBOSOMAL PROTEIN GENES[J];Acta Biophysica Sinica;2008-01
8 ZHAO Li-chan,DENG Yu-xiu,WANG Dong-dong,SU Run-huan,LI Chun-mei,XU Gui-juan,SONG Yan-hua(Guangdong Wen's Foodstuffs Group Co.LTD,Guangdong Wen's Group Academy,Xinxing 527400,Guangdong,China);Analysis of the ORF1a Gene Codon Bias Disparity in Different PRRSV Strains[J];Life Science Research;2009-05
9 LIU Han-mei1,2,HE Rui1,ZHANG Huai-yu1,HUANG Yu-bi2,3(1.College of Biology and Science;2.Maize Research Institute;3.College of Agriculture,Sichuan Agricultural University,Yaan 625014,Sichuan,China);Analysis of Synonymous Codon Usage in Maize Chloroplast Genome[J];Journal of Sichuan Agricultural University;2010-01
10 LIU Han-mei1,2,HE Rui1,ZHANG Huai-yu1,HUANG Yu-bi2,3(1.College of Biology and Science;2.Maize Research Institute;3.College of Agriculture,Sichuan Agricultural University,Yaan 625014,Sichuan,China);Analysis of WRKY Transcriptional Factors on Synonymous Codon Bias in Arabidopsis and Rice[J];Journal of Sichuan Agricultural University;2010-01
China Proceedings of conference Full-text Database 1 Hits
1 LI Li, ZHANG Hong-ping, WU Deng-jun (Key laboratory of Animal genetics and breeding, Sichuan Agriculture University, Ya'an 625014, China);Detection and Analysis on Exon3 Partial Sequence of Follicle Stimulating Hormone Beta Gene from Nanjiang Huang Goat[A];[C];2006
【Secondary Citations】
Chinese Journal Full-text Database 4 Hits
1 XUE Wen, WANG Jin ** , HUANG Qi Lai, ZHENG Wei Juan, HUA Zi Chun(State Key Laboratory of Pharmaceutical Biotechnology, School of Life Science, Nanjing University, Nanjing 210093, China);Synergistic Activation of Eukaryotic Gene Transcription by Multiple Upstream Sites[J];Progress In Biochemistry and Biophysics;2002-04
2 ZHANG Jing (The Center of Applied Statistics, Yunnan University, Kunming 650091, China) SHI Xiu Fan (Key Laboratory of Cellular and Molecular Evolution, Kunming Institute of Zoology, The Chinese Academy of Sciences, Kunming 650223, China);Statistical Analysis of Sequence Features of Introns With Positive Transcriptional Regulation in Yeast Genes[J];Progress In Biochemistry and Biophysics;2003-02
3 ZHANG Jing 1,2)** , SHI Xiu-Fan 3) ,YANG Heng-Fen 1) ( 1) The Center of Applied Statistics, Yunnan University, Kunming 650091, China; 2) Department of Computer Science, Yunnan University of Finance and Economics, Kunming 650221,China; 3) Key Laboratory of Cellular and Molecular Evolution, Kunmin g Institute of Zoology, The Chinese Academy of Sciences, Kunming 650223, China);Transcription Rates of Yeast Genes Are Influenced by The Distribution of Introns[J];Progress In Biochemistry and Biophysics;2003-06
4 ZHANG Kun-Lin1), ZHANG Jing2)**, LUO Jing-Chu1)1)Center of Bioinformatics, College of Life Science and National Laboratory of Protein Engineering and Plant Genetic Engineering, Peking University, Beijing 100871, China;2)Department of Statistics, The Center of Applied Statistics, Yunnan University, Kunming 650091,China);Potential Transcriptional Synergy Between Upstream Regions and Introns of Yeast Genes[J];Progress In Biochemistry and Biophysics;2005-01
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