title: Detection change points of triplet periodicity of gene.
abstract: The triplet periodicity (TP) is a distinguished property of protein coding sequences. There are complex genes with more than one TP type along their sequence. We say that these genes contain a triplet periodicity change point. The aim of the work is to find all genes that contain TP change point and attempt to compare the positions of change point in genes with known biological data. We have developed a mathematical method to identify triplet periodicity changes along a sequence. We have found 311,221 genes with the TP change point in the KEGG/Genes database (version 48). It is about 8% from the total database volume (4013150). We showed that the repetitive sequences are not the only cause of such events. We suppose that the TP change point may indicate a fusion of genes or domains. We performed BLAST analysis to find potential ancestral genes for the parts of genes with TP change point. As a result we found that in 131323 cases sequences with TP change point have proper similarities for one or both parts. The relationship between TP change point and the fusion events in genes is discussed. The program realization of the method is available by request to authors.
authors: Bioinfomatics Laboratory, Centre of Bioengineering, Russian Academy of Sciences, 117312, Moscow, Prospect 60-tya Oktyabrya, 7/1, Russia. suvorovay@gmail.com
authors: Yulia M
authors: YM
authors: Suvorova
authors: Valentina M
authors: VM
authors: Rudenko
authors: Eugene V
authors: EV
authors: Korotkov
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D019295:Computational Biology; D030541:Databases, Genetic; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D010507:Periodicity; D012091:Repetitive Sequences, Nucleic Acid