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To further study the properties of P53 suppressor gene, the 3-base periodicity of P53 coding sequence (CDS) and the corresponding mRNA are analyzed. And the codon biases of P53 CDS and mRNA are discussed through analyzing their relative synonymous codon usage and quasi relative synonymous codon usage values. The results show that the CDS of P53 exhibits 3-base periodicity, whereas the corresponding mRNA of P53 does not, and that the P53 CDS has a stronger bias towards C and G ending codons than the mRNA. This suggests that the 3-base periodicity is closely related to the codon usage bias of P53 gene, and the degree of codon bias has an effect on the 3-base periodicity, which further explains the difference in 3-base periodicity between P53 CDS and mRNA from the point of view of biology. This characteristic of P53 gene may be useful in increasing the correct rate of gene recognition and the extensive investigation of P53 gene.
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Keywords:
- 3-base of periodicity /
- codon usage bias /
- P53 gene /
- relative synonymous codon usage
[1] Nantajit D, Fan M, Duru N, Wen YF, Li J J 2010 Plos. One 5 e12341
[2] Xia J F, Jia Y 2010 Chin. Phys. B 19 040506
[3] Yan Y Y, Zhu P 2011 Chin. Phys. B 20 018701
[4] Zhang L J, Yan S W, Zhuo Y Z 2007 Acta Phys. Sin. 56 2442 (in Chinese) [张丽娟, 晏世伟, 卓益忠 2007 物理学报 56 2442]
[5] Hota M K, Srivastava V K 2010 Int. J. Computat. Biology Drug Design 3 259
[6] Tian Y X, Chen C, Zou X Y, Qiu J D, Cai P X, Mo J Y 2005 Acta Chim. Sin. 63 1215 (in Chinese) [田元新, 陈超, 邹小勇, 邱建丁, 蔡沛祥, 莫金垣 2005 化学学报 63 1215]
[7] Zhang J, Shi X F 2002 Prog. Biochem. Biophys. 29 267 (in Chinese) [张静, 石秀凡 2002 生物化学与生物物理进展 29 267]
[8] Wang Q Q, Tan C J, Yan H B, Zhu P 2013 Acta Biophys. Sin. 29 296 (in Chinese) [王其强, 谈承杰, 晏寒冰, 朱平 2013 生物物理学报 29 296]
[9] Shi X F, Huang J F, Liang C R, Liu S Q, Xie J, Liu C Q 2000 Chin. Sci. Bull. 45 2520 (in Chinese) [石秀凡, 黄京飞, 梁宠荣, 柳树群, 谢君, 刘次全 2000 科学通报 45 2520]
[10] Zhu P, Gao L, Xu Z Y 2009 Acta Phys. Sin. 58 714 (in Chinese) [朱平, 高雷, 徐振源 2009 物理学报 58 714]
[11] Sharma S D, Shakya K, Sharma S N 2011 International Conference on Computer, Communication and Electrical Technology-ICCCET 2011 March, 18-19 p71
[12] Zhao J J, Qi B, Ding L J, Tang X Q 2010 J. Food Sci. Biotechnol. 29 755 (in Chinese) [赵静静, 齐斌, 丁利娟, 唐旭清 2010 食品与生物技术学报 29 755]
[13] Berryman M J, Allison A 2005 Fluct. Noise Lett. 5 13
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[1] Nantajit D, Fan M, Duru N, Wen YF, Li J J 2010 Plos. One 5 e12341
[2] Xia J F, Jia Y 2010 Chin. Phys. B 19 040506
[3] Yan Y Y, Zhu P 2011 Chin. Phys. B 20 018701
[4] Zhang L J, Yan S W, Zhuo Y Z 2007 Acta Phys. Sin. 56 2442 (in Chinese) [张丽娟, 晏世伟, 卓益忠 2007 物理学报 56 2442]
[5] Hota M K, Srivastava V K 2010 Int. J. Computat. Biology Drug Design 3 259
[6] Tian Y X, Chen C, Zou X Y, Qiu J D, Cai P X, Mo J Y 2005 Acta Chim. Sin. 63 1215 (in Chinese) [田元新, 陈超, 邹小勇, 邱建丁, 蔡沛祥, 莫金垣 2005 化学学报 63 1215]
[7] Zhang J, Shi X F 2002 Prog. Biochem. Biophys. 29 267 (in Chinese) [张静, 石秀凡 2002 生物化学与生物物理进展 29 267]
[8] Wang Q Q, Tan C J, Yan H B, Zhu P 2013 Acta Biophys. Sin. 29 296 (in Chinese) [王其强, 谈承杰, 晏寒冰, 朱平 2013 生物物理学报 29 296]
[9] Shi X F, Huang J F, Liang C R, Liu S Q, Xie J, Liu C Q 2000 Chin. Sci. Bull. 45 2520 (in Chinese) [石秀凡, 黄京飞, 梁宠荣, 柳树群, 谢君, 刘次全 2000 科学通报 45 2520]
[10] Zhu P, Gao L, Xu Z Y 2009 Acta Phys. Sin. 58 714 (in Chinese) [朱平, 高雷, 徐振源 2009 物理学报 58 714]
[11] Sharma S D, Shakya K, Sharma S N 2011 International Conference on Computer, Communication and Electrical Technology-ICCCET 2011 March, 18-19 p71
[12] Zhao J J, Qi B, Ding L J, Tang X Q 2010 J. Food Sci. Biotechnol. 29 755 (in Chinese) [赵静静, 齐斌, 丁利娟, 唐旭清 2010 食品与生物技术学报 29 755]
[13] Berryman M J, Allison A 2005 Fluct. Noise Lett. 5 13
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