Cited by 103RNA Research and SplicingRNA and protein synthesis mechanismsRNA regulation and disease

The splicing regulatory element, UGCAUG, is phylogenetically and spatially conserved in introns that flank tissue-specific alternative exons

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Minovitsky, S.·2005·Nucleic Acids Research

Abstract

Previous studies have identified UGCAUG as an intron splicing enhancer that is frequently located adjacent to tissue-specific alternative exons in the human genome. Here, we show that UGCAUG is phylogenetically and spatially conserved in introns that flank brain-enriched alternative exons from fish to man. Analysis of sequence from the mouse, rat, dog, chicken and pufferfish genomes revealed a strongly statistically significant association of UGCAUG with the proximal intron region downstream of brain-enriched alternative exons. The number, position and sequence context of intronic UGCAUG elements were highly conserved among mammals and in chicken, but more divergent in fish. Control datasets, including constitutive exons and non-tissue-specific alternative exons, exhibited a much lower incidence of closely linked UGCAUG elements. We propose that the high sequence specificity of the UGCAUG element, and its unique association with tissue-specific alternative exons, mark it as a critical component of splicing switch mechanism(s) designed to activate a limited repertoire of splicing events in cell type-specific patterns. We further speculate that highly conserved UGCAUG-binding protein(s) related to the recently described Fox-1 splicing factor play a critical role in mediating this specificity.

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Authors
Minovitsky, S.
Affiliations
Lawrence Berkeley National Laboratory (US)
Corresponding author
Minovitsky, S.
Venue
Nucleic Acids Research
Published
2005-01-19
Volume
33
Issue
2
Pages
714-724
ISSN
  • 0305-1048 (ISSN-L)
  • 1362-4962
OpenAlex
W2019518393
Cited by
103
References
47
Citations by year
2025: 1 · 2024: 1 · 2023: 3 · 2022: 1 · 2021: 2 · 2020: 1 · 2019: 2 · 2018: 1 · 2017: 5 · 2016: 2 · 2015: 1 · 2014: 4 · 2013: 3 · 2012: 5
FWCI
6.17
Type
journal article
Language
en
Open access
Licence
other-oa
Locations
  • Nucleic Acids Research (publishedVersion, other-oa)
  • PubMed Central (publishedVersion)
  • PubMed (publishedVersion)
Funders
  • U.S. Department of Energy (DE-AC03-?, AC03-76SF00098, DEAC03-76SF00098)
  • National Institutes of Health (DE-AC03- 76SF00098)
  • National Heart, Lung, and Blood Institute (R01HL045182, HL45182, R56HL045182)
  • Biological and Environmental Research
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
Keywords
alternative splicing, phylogenetic conservation, splicing regulation, comparative genomics
MeSH terms
Animals, Base Sequence, Brain, Chickens, Dogs, Exons, Humans, Introns, Phylogeny, Tissue Distribution, Conserved Sequence, Alternative Splicing, Tetraodontiformes, Regulatory Sequences, Ribonucleic Acid, Mice, Rats

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