biostudies-literatureUnknown10(11)Naville MIt is recognized that a large proportion of eukaryotic RNAs and proteins is not produced from conventional genes but from short and alternative (alt) open reading frames (ORFs) that are not captured by gene prediction programs. Here we present an in silico prediction of altORFs by applying several selecting filters based on evolutionary conservation and annotations of previously characterized altORF peptides. Our work was performed in the <i>Bithorax-complex</i> (<i>BX-C</i>), which was one of the first genomic regions described to contain long non-coding RNAs in <i>Drosophila</i>. We showed that several altORFs could be predicted from coding and non-coding sequences of <i>BX-C</i>. In addition, the selected altORFs encode for proteins that contain several interesting molecular features, sCells2983https://www.ebi.ac.uk/biostudies/studies/S-EPMC8616405biostudies-literatureIn-Depth Annotation of the <i>Drosophila Bithorax-Complex</i> Reveals the Presence of Several Alternative ORFs That Could Encode for Motif-Rich Peptides.PMC8616405Naville MMerabet SfalseIn-Depth Annotation of the <i>Drosophila Bithorax-Complex</i> Reveals the Presence of Several Alternative ORFs That Could Encode for Motif-Rich Peptides.It is recognized that a large proportion of eukaryotic RNAs and proteins is not produced from conventional genes but from short and alternative (alt) open reading frames (ORFs) that are not captured by gene prediction programs. Here we present an in silico prediction of altORFs by applying several selecting filters based on evolutionary conservation and annotations of previously characterized altORF peptides. Our work was performed in the <i>Bithorax-complex</i> (<i>BX-C</i>), which was one of the first genomic regions described to contain long non-coding RNAs in <i>Drosophila</i>. We showed that several altORFs could be predicted from coding and non-coding sequences of <i>BX-C</i>. In addition, the selected altORFs encode for proteins that contain several interesting molecular features, s2021-01-01T00:00:00Z2021 Nov2026-06-21T03:12:52.645Z2026-06-21T03:06:54.654ZS-EPMC86164053483120610.3390/cells10112983