02335nas a2200289 4500008004100000022001400041245008800055210006900143260001500212300001400227490000700241520142800248653001201676653002701688653002601715653001101741653002401752653001301776100002801789700001701817700002501834700001701859700001501876700002401891700001501915856011501930 2020 eng d a1367-481100aUsing AnABlast for intergenic sORF prediction in the Caenorhabditis elegans genome.0 aUsing AnABlast for intergenic sORF prediction in the Caenorhabdi c2020 12 08 a4827-48320 v363 a

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.

10aAnimals10aCaenorhabditis elegans10aComputational Biology10aGenome10aOpen Reading Frames10aSoftware1 aCasimiro-Soriguer, C, S1 aRigual, M, M1 aBrokate-Llanos, A, M1 aMuñoz, M, J1 aGarzón, A1 aPérez-Pulido, A, J1 aJimenez, J uhttps://www.clinbioinfosspa.es/content/using-anablast-intergenic-sorf-prediction-caenorhabditis-elegans-genome