Expression of distinct RNAs from 3′ untranslated regions

Mercer, Tim R., Wilhelm, Dagmar, Dinger, Marcel E., Solda, Giulia, Korbie, Darren J., Glazov, Evgeny A., Truong, Vy, Schwenke, Maren, Simons, Cas, Matthaei, Klaus I., Saint, Robert, Koopman, Peter and Mattick, John S. (2011) Expression of distinct RNAs from 3′ untranslated regions. Nucleic Acids Research, 39 6: 2393-2403. doi:10.1093/nar/gkq1158

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Author Mercer, Tim R.
Wilhelm, Dagmar
Dinger, Marcel E.
Solda, Giulia
Korbie, Darren J.
Glazov, Evgeny A.
Truong, Vy
Schwenke, Maren
Simons, Cas
Matthaei, Klaus I.
Saint, Robert
Koopman, Peter
Mattick, John S.
Title Expression of distinct RNAs from 3′ untranslated regions
Journal name Nucleic Acids Research   Check publisher's open access policy
ISSN 0305-1048
Publication date 2011-01-01
Year available 2010
Sub-type Article (original research)
DOI 10.1093/nar/gkq1158
Open Access Status DOI
Volume 39
Issue 6
Start page 2393
End page 2403
Total pages 11
Place of publication Oxford, United Kingdom
Publisher Oxford University Press
Language eng
Abstract The 3′ untranslated regions (3′UTRs) of eukaryotic genes regulate mRNA stability, localization and translation. Here, we present evidence that large numbers of 3′UTRs in human, mouse and fly are also expressed separately from the associated protein-coding sequences to which they are normally linked, likely by post-transcriptional cleavage. Analysis of CAGE (capped analysis of gene expression), SAGE (serial analysis of gene expression) and cDNA libraries, as well as microarray expression profiles, demonstrate that the independent expression of 3′UTRs is a regulated and conserved genome-wide phenomenon. We characterize the expression of several 3′UTR-derived RNAs (uaRNAs) in detail in mouse embryos, showing by in situ hybridization that these transcripts are expressed in a cell- and subcellular-specific manner. Our results suggest that 3′UTR sequences can function not only in cis to regulate protein expression, but also intrinsically and independently in trans, likely as noncoding RNAs, a conclusion supported by a number of previous genetic studies. Our findings suggest novel functions for 3′UTRs, as well as caution in the use of 3′UTR sequence probes to analyze gene expression.
Keyword Biochemistry & Molecular Biology
Biochemistry & Molecular Biology
Q-Index Code C1
Q-Index Status Confirmed Code
Grant ID FF0561986
Institutional Status UQ
Additional Notes Published online: 12 November 2010.

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Created: Wed, 02 Feb 2011, 01:38:51 EST by Susan Allen on behalf of Institute for Molecular Bioscience