title: Uncapped 5' ends of mRNAs targeted by cytoplasmic capping map to the vicinity of downstream CAGE tags.
abstract: In mammalian transcriptomes approximately 25% of 5' ends determined by Capped Analysis of Gene Expression (CAGE) map to locations within spliced exons. The current study sought to determine if the cytoplasmic capping complex participates in generating these downstream CAGE tags. 5'-RACE was used to amplify the uncapped ends of target transcripts that accumulate when cytoplasmic capping is blocked. Sequencing of these RACE products mapped the positions of uncapped ends either exactly to or just downstream of archived CAGE tags. These findings support a role for cytoplasmic capping in generating the downstream capped ends identified by CAGE.
authors.affiliation: Center for RNA Biology, The Ohio State University, Columbus, OH 43210, United States; Department of Molecular and Cellular Biochemistry, The Ohio State University, Columbus, OH 43210, United States.
authors.forename: Daniel L
authors.initials: DL
authors.lastname: Kiss
authors.affiliation: Center for RNA Biology, The Ohio State University, Columbus, OH 43210, United States; Department of Physics, The Ohio State University, Columbus, OH 43210, United States.
authors.forename: Kenji
authors.initials: K
authors.lastname: Oman
authors.affiliation: Center for RNA Biology, The Ohio State University, Columbus, OH 43210, United States; Department of Physics, The Ohio State University, Columbus, OH 43210, United States; Department of Chemistry & Biochemistry, and Division of Hematology, The Ohio State University, Columbus, OH 43210, United States; Department of Internal Medicine, The Ohio State University, Columbus, OH 43210, United States.
authors.forename: Ralf
authors.initials: R
authors.lastname: Bundschuh
authors.affiliation: Center for RNA Biology, The Ohio State University, Columbus, OH 43210, United States; Department of Molecular and Cellular Biochemistry, The Ohio State University, Columbus, OH 43210, United States. Electronic address: schoenberg.3@osu.edu.
authors.forename: Daniel R
authors.initials: DR
authors.lastname: Schoenberg
mesh_terms: D000818:Animals; D003593:Cytoplasm / Q000235:genetics; D005091:Exons / Q000235:genetics; D005786:Gene Expression Regulation; D016678:Genome; D012315:RNA Caps / Q000235:genetics*; D022821:RNA Splice Sites / Q000235:genetics*; D062085:RNA, Long Noncoding / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics; D059467:Transcriptome / Q000235:genetics
chemical_list: D012315:RNA Caps; D022821:RNA Splice Sites; D062085:RNA, Long Noncoding; D012333:RNA, Messenger
keywords: CAGE; Cytoplasm; Cytoplasmic capping; Mammalian cell; Uncapped 5′ end; mRNA capping