oRNAment V2: an expanded database of putative RNA binding protein target sites in the transcriptomes of diverse model species.

RNA binding proteins (RBPs) modulate the expression, form, and fate of RNA transcripts throughout their lifecycle, thereby serving as essential regulators of gene expression. Despite impactful high-throughput experimental advances that have enabled in vitro and in vivo identification of RBP binding sites, few resources provide a comprehensive catalog of potential RBP binding sites transcriptome-wide. To address this limitation, we previously developed oRNAment, a database of putative RBP binding sites across coding and non-coding transcriptome regions in human and four model species. Here, we present oRNAment V2, a significantly enhanced resource, with an expanded collection of RBPs, motifs, species, and the addition of intronic sequences. The updated oRNAment resource now predicts a total of 3 808 264 959 putative RBP binding sites across the transcriptomes of human and 14 species. Novel features of oRNAment include predictions of binding site evolutionary age, annotations of CLIP support, and visualizations with UCSC track hubs for all putative RBP binding sites. On the front end, oRNAment's web interface enhances functionality and usability by providing improved search and filtering functions, download options, and visualizations. With its expansion, oRNAment V2 continues to provide an important resource to support research by the RNA community. oRNAment V2 is available at https://rnabiology.ircm.qc.ca/oRNAmentv2.