RT Journal Article
T1 Using AnABlast for intergenic sORF prediction in the Caenorhabditis elegans genome
A1 Sánchez Casimiro-Soriguer, Carlos
A1 Rigual, Maria del Mar
A1 Brokate Llanos, Ana María
A1 Muñoz Ruiz, Manuel Jesús
A1 Garzón, Andrés
A1 Pérez-Pulido, Antonio J.
A1 Jiménez, Juan
K1 AnABlast
K1 C. elegans
K1 New genes
K1 In silico gene-prediction tool
K1 Protein-coding sequences
AB Motivation: Short bioactive peptides encoded by small open reading frames (sORFs) play important roles in eukaryotes. Bioinformatics prediction of ORFs is an early step in a genome sequence analysis, but sORFs encoding short peptides, often using non-AUG initiation codons, are not easily discriminated from false ORFs occurring by chance.Results: AnABlast is a computational tool designed to highlight putative protein-coding regions in genomic DNA sequences. This protein-coding finder is independent of ORF length and reading frame shifts, thus making of AnABlast a potentially useful tool to predict sORFs. Using this algorithm, here, we report the identification of 82 putative new intergenic sORFs in the Caenorhabditis elegans genome. Sequence similarity, motif presence, expression data and RNA interference experiments support that the underlined sORFs likely encode functional peptides, encouraging the use of AnABlast as a new approach for the accurate prediction of intergenic sORFs in annotated eukaryotic genomes.Availability and implementation: AnABlast is freely available at http://www.bioinfocabd.upo.es/ab/. The C.elegans genome browser with AnABlast results, annotated genes and all data used in this study is available at http://www.bioinfocabd.upo.es/celegans.Supplementary information: Supplementary data are available at Bioinformatics online.
PB Oxford University Press
YR 2020
FD 2020
LK https://hdl.handle.net/10433/25475
UL https://hdl.handle.net/10433/25475
LA en
NO C S Casimiro-Soriguer, M M Rigual, A M Brokate-Llanos, M J Muñoz, A Garzón, A J Pérez-Pulido, J Jimenez, Using AnABlast for intergenic sORF prediction in the Caenorhabditis elegans genome, Bioinformatics, Volume 36, Issue 19, October 2020, Pages 4827–4832, https://doi.org/10.1093/bioinformatics/btaa608
NO Universidad Pablo de Olavide. Departamento de Biología Molecular e Ingeniería Bioquímica
DS RIO
RD Apr 22, 2026