Functional impact of transposable elements using bioinformatic analysis and a comparative genomic approach

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Title
Functional impact of transposable elements using bioinformatic analysis and a comparative genomic approach
Author(s)
Dae Soo KimJae Won HuhYoung-Hyun KimSang Je Park; Kyu Tae Chang
Bibliographic Citation
Molecules and Cells, vol. 30, no. 1, pp. 77-87
Publication Year
2010
Abstract
A dual coding event, which is the translation of different isoforms from a single gene, is one of the special patterns among the alternative splicing events. This is an important mechanism for the regulation of protein diversity in human and mouse genomes. Although the regulation for dual coding events has been characterized in a few genes, the individual mechanism remains unclear. Numerous studies have described the exonization of transposable elements, which is the splicing mediated insertion of transposable element sequence fragments into mature mRNAs. Therefore, in this study, we investigated the number of transposable element (TE)-derived dual coding genes in human, chimpanzee and mouse genomes. TE fusion exons appeared in the dual coding regions of 309 human genes. Functional protein domain alterations by TE-derived dual coding events were observed in 129 human genes. Comparative TE-derived dual coding events were also analyzed in chimpanzee and mouse orthologs. Seventy chimpanzee orthologs had TE-derived dual coding events, but mouse orthologs did not have any TE-derived dual coding events. Taken together, our analyses listed the number of TE-derived dual coding genes which could be investigated by experimental analysis and suggested that TE-derived dual coding events were major sources for the functional diversity of human genes, but not mouse genes.
Keyword
bioinformatic analysisdual coding geneTE-derived dual coding genestransposable element
ISSN
1016-8478
Publisher
South Korea
DOI
http://dx.doi.org/10.1007/s10059-010-0091-2
Type
Article
Appears in Collections:
Division of Research on National Challenges > Environmental diseases research center > 1. Journal Articles
Ochang Branch Institute > Division of Bioinfrastructure > National Primate Research Center > 1. Journal Articles
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