Results 1 to 10 of about 19,628 (74)

Characteristics of transposable element exonization within human and mouse [PDF]

PLoS ONE 5(6):e10907 2010, 2010
Insertion of transposed elements within mammalian genes is thought to be an important contributor to mammalian evolution and speciation. Insertion of transposed elements into introns can lead to their activation as alternatively spliced cassette exons, an event called exonization. Elucidation of the evolutionary constraints that have shaped fixation of
arxiv   +1 more source

The role of transposable elements in the evolution of non-mammalian vertebrates and invertebrates [PDF]

Genome Biology 2010, 11:R59, 2010
Background: Transposable elements (TEs) have played an important role in the diversification and enrichment of mammalian transcriptomes through various mechanisms such as exonization and intronization (the birth of new exons/introns from previously intronic/exonic sequences, respectively), and insertion into first and last exons.
arxiv   +1 more source

SERpredict: Detection of tissue- or tumor-specific isoforms generated through exonization of transposable elements [PDF]

BMC Genetics 2007 8:78, 2008
Background: Transposed elements (TEs) are known to affect transcriptomes, because either new exons are generated from intronic transposed elements (this is called exonization), or the element inserts into the exon, leading to a new transcript. Several examples in the literature show that isoforms generated by an exonization are specific to a certain ...
arxiv   +1 more source

Biased exonization of transposed elements in duplicated genes: A lesson from the TIF-IA gene [PDF]

BMC Molecular Biology 2007, 8:109, 2008
Background: Gene duplication and exonization of intronic transposed elements are two mechanisms that enhance genomic diversity. We examined whether there is less selection against exonization of transposed elements in duplicated genes than in single-copy genes.
arxiv   +1 more source

Comparative analysis of transposed element insertion within human and mouse genomes reveals Alu's unique role in shaping the human transcriptome [PDF]

Genome Biology 2007, 8:R127, 2008
Background: Transposed elements (TEs) have a substantial impact on mammalian evolution and are involved in numerous genetic diseases. We compared the impact of TEs on the human transcriptome and the mouse transcriptome. Results: We compiled a dataset of all TEs in the human and mouse genomes, identifying 3,932,058 and 3,122,416 TEs, respectively.
arxiv   +1 more source

Alternative Splicing and Genomic Stability [PDF]

Physical Biology, volume 1, issue 2, pages C1 - C4, 2004, 2004
Alternative splicing allows an organism to make different proteins in different cells at different times, all from the same gene. In a cell that uses alternative splicing, the total length of all the exons is much shorter than in a cell that encodes the same set of proteins without alternative splicing.
arxiv   +1 more source

Exons, introns and DNA thermodynamics [PDF]

Phys. Rev. Lett. 94, 178101 (2005), 2004
The genes of eukaryotes are characterized by protein coding fragments, the exons, interrupted by introns, i.e. stretches of DNA which do not carry any useful information for the protein synthesis. We have analyzed the melting behavior of randomly selected human cDNA sequences obtained from the genomic DNA by removing all introns. A clear correspondence
arxiv   +1 more source

tRNA-isoleucine-tryptophan Composite Gene [PDF]

Biochemical and biophysical Research Communications 339 (2005) 37-40, 2005
Transfer-RNA genes in archaea often have introns intervening between exon sequences. The structural motif at the boundary between exon and intron is the bulge-helix-bulge. Computational investigations of these boundary structures in H. marismortui lead us to propose that tRNA-isoleucine and tRNA-tryptophan genes are co-located.
arxiv   +1 more source

TranspoGene and microTranspoGene: transposed elements influence on the transcriptome of seven vertebrates and invertebrates [PDF]

Nucleic Acids Research, 2008, Vol 36, 2008
Transposed elements (TEs) are mobile genetic sequences. During the evolution of eukaryotes TEs were inserted into active protein-coding genes, affecting gene structure, expression and splicing patterns, and protein sequences. Genomic insertions of TEs also led to creation and expression of new functional non-coding RNAs such as micro- RNAs.
arxiv   +1 more source

Partial correlation analysis indicates causal relationships between GC-content, exon density and recombination rate in the human genome [PDF]

BMC Bioinformatics, 10(suppl 1), S66 (2009), 2009
{\bf Background}: Several features are known to correlate with the GC-content in the human genome, including recombination rate, gene density and distance to telomere. However, by testing for pairwise correlation only, it is impossible to distinguish direct associations from indirect ones and to distinguish between causes and effects. {\bf Results}: We
arxiv   +1 more source