DOI: 10.1101/gr.1208803. Intronic Sequences Flanking Alternatively Spliced Exons Are Conserved Between Human and Mouse

Intronic Sequences Flanking Alternatively Spliced Exons Are Conserved Between Human and Mouse

10.1101/gr.1208803

Crossref journal-article

Cold Spring Harbor Laboratory

Genome Research (246)

Abstract

Comparison of the sequences of mouse and human genomes revealed a surprising number of nonexonic, nonexpressed conserved sequences, for which no function could be assigned. To study the possible correlation between these conserved intronic sequences and alternative splicing regulation, we developed a method to identify exons that are alternatively spliced in both human and mouse. We compiled two exon sets: one of alternatively spliced conserved exons and another of constitutively spliced conserved exons. We found that 77% of the conserved alternatively spliced exons were flanked on both sides by long conserved intronic sequences. In comparison, only 17% of the conserved constitutively spliced exons were flanked by suchconserved intronic sequences. The average length of the conserved intronic sequences was 103 bases in the upstream intron and 94 bases in the downstream intron. The average identity levels in the immediately flanking intronic sequences were 88% and 80% for the upstream and downstream introns, respectively, higher than the conservation levels of 77% that were measured in promoter regions. Our results suggest that the function of many of the intronic sequence blocks that are conserved between human and mouse is the regulation of alternative splicing.

Bibliography

Sorek, R., & Ast, G. (2003). Intronic Sequences Flanking Alternatively Spliced Exons Are Conserved Between Human and Mouse. Genome Research, 13(7), 1631â1637.

Authors 2

Rotem Sorek (first)
Gil Ast (additional)

References 30 Referenced 183

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Dates

Type	When
Created	22 years, 1 month ago (July 27, 2003, 1:25 a.m.)
Deposited	3 years, 9 months ago (Nov. 18, 2021, 2:23 p.m.)
Indexed	1 hour, 6 minutes ago (Sept. 4, 2025, 4:03 a.m.)
Issued	22 years, 2 months ago (July 1, 2003)
Published	22 years, 2 months ago (July 1, 2003)
Published Online	22 years, 2 months ago (July 1, 2003)
Published Print	22 years, 2 months ago (July 1, 2003)

Funders 0

None

BibTeX

@article{Sorek_2003, title={Intronic Sequences Flanking Alternatively Spliced Exons Are Conserved Between Human and Mouse}, volume={13}, ISSN={1088-9051}, url={http://dx.doi.org/10.1101/gr.1208803}, DOI={10.1101/gr.1208803}, number={7}, journal={Genome Research}, publisher={Cold Spring Harbor Laboratory}, author={Sorek, Rotem and Ast, Gil}, year={2003}, month=jul, pages={1631–1637} }

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  "abstract": "<jats:p>Comparison of the sequences of mouse and human genomes revealed a\n surprising number of nonexonic, nonexpressed conserved sequences, for which no\n function could be assigned. To study the possible correlation between these\n conserved intronic sequences and alternative splicing regulation, we developed\n a method to identify exons that are alternatively spliced in both human and\n mouse. We compiled two exon sets: one of alternatively spliced conserved exons\n and another of constitutively spliced conserved exons. We found that 77% of\n the conserved alternatively spliced exons were flanked on both sides by long\n conserved intronic sequences. In comparison, only 17% of the conserved\n constitutively spliced exons were flanked by suchconserved intronic sequences.\n The average length of the conserved intronic sequences was 103 bases in the\n upstream intron and 94 bases in the downstream intron. The average identity\n levels in the immediately flanking intronic sequences were 88% and 80% for the\n upstream and downstream introns, respectively, higher than the conservation\n levels of 77% that were measured in promoter regions. Our results suggest that\n the function of many of the intronic sequence blocks that are conserved\n between human and mouse is the regulation of alternative splicing.</jats:p>",
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