Timothy W. Nilsen Eric Phizicky Thomas R. Cech

ISSN 1355-8382 EDITOR IN CHIEF DEPUTY EDITOR REVIEWS EDITOR Timothy W. Nilsen Eric Phizicky Thomas R. Cech Case Western Reserve University University of Rochester School Howard Hughes Medical Institute of Medicine and Dentistry

EDITORS Javier F. Caceres Elisa Izaurralde Peter F. Stadler MRC Human Genetics Unit Max Planck Institute for Developmental Biology, Tuebingen Leipzig University Kathleen Collins Daniel Kolakofsky Gisela Storz University of California, Berkeley University of Geneva National Institute of Child Health and Elena Conti Human Development Max Planck Institute of Biochemistry, Marina V. Rodnina Max Planck Institute for Biophysical Chemistry Eric Westhof Martinsried CNRS, Strasbourg Adrian R. Ferré-D’Amaré Rob Singer Albert Einstein School of Medicine John Woolford National Heart, Lung and Blood Institute Carnegie Mellon University Brenton R. Graveley Erik Sontheimer University of Connecticut Health Center University of Massachusetts Medical School EDITORIAL BOARD John N. Abelson Martha J. Fedor Thomas Maniatis Phillip A. Sharp California Institute of Technology The Scripps Research Institute Harvard University Massachusetts Institute of Technology Sidney Altman Witold Filipowicz James Manley Joan A. Steitz Yale University Friedrich Miescher Institute Columbia University Yale University Mariano A. Garcia-Blanco Scott Strobel Manuel Ares Lynne E. Maquat Yale University University of California, Santa Cruz Duke University University of Rochester David Tollervey David P. Bartel Christine Guthrie Iain W. Mattaj University of Edinburgh Massachusetts Institute of Technology University of California, San Francisco EMBL, Heidelberg Thomas Tuschl Brenda L. Bass Matthias W. Hentze William H. McClain The Rockefeller University University of Utah EMBL, Heidelberg University of Wisconsin, Madison Olke C. Uhlenbeck Daniel Herschlag Northwestern University Philip C. Bevilacqua Stanford University Andrew Newman Pennsylvania State University MRC Laboratory of Molecular Biology Juan Valcárcel Allan Jacobson ICREA and Centre de Regulació Genòmica Douglas L. Black University of Massachusetts Harry F. Noller University of California, Los Angeles University of California, Santa Cruz Alan M. Weiner Walter Keller University of Washington Thomas Blumenthal University of Basel Norman R. Pace University of Colorado University of Colorado Marvin Wickens Adrian R. Krainer University of Wisconsin, Madison Ronald R. Breaker Cold Spring Harbor Laboratory Richard A. Padgett Yale University Lerner Research Institute, Cleveland Clinic James R. Williamson Alan M. Lambowitz The Scripps Research Institute Chris Burge University of Texas at Austin Roy Parker Sandra L. Wolin Massachusetts Institute of Technology University of Colorado, Boulder David M.J. Lilley Yale University James E. Dahlberg University of Dundee Marina V. Rodnina Sarah A. Woodson University of Wisconsin, Madison Universität Witten/Herdecke Reinhard Lührmann Johns Hopkins University David R. Engelke Max Planck Institute for Biophysical Michael Rosbash Robert Zimmermann University of Michigan Chemistry, Göttingen Brandeis University University of Massachusetts DIRECTOR OF PRODUCTION MANAGER PRODUCTION EDITOR ASSOCIATE PRODUCTION EDITORIAL COORDINATOR PUBLICATION SERVICES Denise Weiss Marie Cotter EDITOR Ann Marie Micenmacher Linda Sussman Cold Spring Harbor Cold Spring Harbor Mary Mulligan Case Western Reserve University Cold Spring Harbor Laboratory Press Laboratory Press Cold Spring Harbor Laboratory Press Laboratory Press

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Divergent Views Pre-mRNA processing includes N6 methylation of adenosine residues that are retained in mRNA exons and the fallacy of “RNA epigenetics” Robert B. Darnell, Shengdong Ke, and James E. Darnell Jr.

Our views of dynamic N6-methyladenosine RNA methylation Boxuan Zhao, Sigrid Nachtergaele, Ian A. Roundtree, and Chuan He

Meeting Report An amazing meeting arrangement in messenger RNA genes Thoru Pederson

Bioinformatics miPrimer: an empirical-based qPCR primer design method for small noncoding microRNA Shih-Ting Kang, Yi-Shan Hsieh, Chi-Ting Feng, Yu-Ting Chen, Pok Eric Yang, and Wei-Ming Chen

RNA2DMut: a web tool for the design and analysis of RNA structure mutations Walter N. Moss

Report Genetic bypass of essential RNA repair enzymes in budding yeast Patrick D. Cherry, Laura K. White, Kerri York, and Jay R. Hesselberth

Articles The fungal snoRNAome Sebastian Canzler, Peter F. Stadler, and Jana Schoor

Examining tRNA 3′-ends in Escherichia coli: teamwork between CCA-adding enzyme, RNase T, and RNase R Karolin Wellner, Andreas Czech, Zoya Ignatova, Heike Betat, and Mario Mörl