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Volume 12   Issue 2   Year 2017
Intron Sliding and Length Variability of Genes Enriched of Phase 1 Long Introns

Irina V. Poverennaya, Denis D. Gorev, Tatyana V. Astakhova, Ivan I. Tsitovich, Viktor V. Yakovlev, Mikhail A. Roytberg

Bioengineering and Bioinformatics Faculty, Lomonosov Moscow State University; Vavilov
Institute of General Genetics, Russian Academy of Sciences, Moscow
Moscow Institute of Physics and Technology, Moscow
Institute of Mathematical Problems of Biology RAS - the Branch of Keldysh Institute of Applied Mathematics, Russian Academy of Sciences, Pushchino
National Research University "Higher School of Economics", Moscow
Kharkevich Institute of Information Transmission Problems, Russian Academy of Sciences, Moscow

Abstract.   Due to high mutagenesis of intron sequences, intron evolution is usually considered in terms of evolution of exon-intron structures (EIS). The shifting of intron over short distances (rare evolutionary event called intron sliding) could lead to the change of intron phase, i.e. the intron position relative to the open reading frame. Here we analyze the EIS from four  datasets of eukaryotic orthologues in order to find out the preferable choice of intron phase during sliding and to study the correlation between orthologous intron lengths. To identify the orthologous introns we have constructed the alignments of  EIS of orthologous genes. Several sliding events with  intron phase change were  revealed from the analysis; however, our initial hypothesis that in the process of sliding introns prefer to change its phase to 0 more frequently, was not been confirmed. Nevertheless, it is necessary to expand the analysis on a larger dataset for making a proper conclusions. Despite high variability of intron length, some taxonomic groups share the similar length values. Moreover, some length conservation could be observed if instead of intron length L we consider a normalized length N = (L-A)/A, where A is an average length within an orthologous intron group. E.g. for ptprd genes of birds (28 species) the normalized value is in the interval (-0.15, 0.15) for 85.2 % of introns what is significantly higher than the values for random lengths set in accordance with the intron lengths distribution. That length “conservation” leads us to the question what intron length was in  the ancient introns.
Key words: exon-intron structure, EIS, intron, phase 1, alignment, sliding, conservation.

Table of Contents Original Article
Math. Biol. Bioinf.
doi: 10.17537/2017.12.302
published in Russian

Abstract (rus.)
Abstract (eng.)
Full text (rus., pdf)
Supplementary data


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