| Literature DB >> 22659028 |
Raffaella Casadei1, Allison Piovesan, Lorenza Vitale, Federica Facchin, Maria Chiara Pelleri, Silvia Canaider, Eva Bianconi, Flavia Frabetti, Pierluigi Strippoli.
Abstract
The "5' end mRNA artifact" issue refers to the incorrect assignment of the first AUG codon in an mRNA, due to the incomplete determination of its 5' end sequence. We performed a systematic identification of coding regions at the 5' end of all human known mRNAs, using an automated expressed sequence tag (EST)-based approach. Following parsing of more than 7 million BLAT alignments, we found 477 human loci, out of 18,665 analyzed, in which an extension of the mRNA 5' coding region was identified. Proof-of-concept confirmation was obtained by in vitro cloning and sequencing for GNB2L1, QARS and TDP2 cDNAs, and the consequences for the functional studies of these loci are discussed. We also generated a list of 20,775 human mRNAs where the presence of an in-frame stop codon upstream of the known start codon indicates completeness of the coding sequence at 5' in the current form.Entities:
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Year: 2012 PMID： 22659028 DOI： 10.1016/j.ygeno.2012.05.012
Source DB: PubMed Journal: Genomics ISSN： 0888-7543 Impact factor: 5.736