Márquez, YamileMantica, FedericaCozzuto, LucaBurguera, DemiánHermoso Pulido, AntonioPonomarenko, JuliaRoy, Scott W.Irimia Martínez, Manuel2021-12-132021-12-132021Márquez Y, Mantica F, Cozzuto L, Burguera D, Hermoso-Pulido A, Ponomarenko J et al. ExOrthist: a tool to infer exon orthologies at any evolutionary distance. Genome Biol. 2021 Aug 20;22(1):239. DOI: 10.1186/s13059-021-02441-91474-760Xhttp://hdl.handle.net/10230/49181Several bioinformatic tools have been developed for genome-wide identification of orthologous and paralogous genes. However, no corresponding tool allows the detection of exon homology relationships. Here, we present ExOrthist, a fully reproducible Nextflow-based software enabling inference of exon homologs and orthogroups, visualization of evolution of exon-intron structures, and assessment of conservation of alternative splicing patterns. ExOrthist evaluates exon sequence conservation and considers the surrounding exon-intron context to derive genome-wide multi-species exon homologies at any evolutionary distance. We demonstrate its use in different evolutionary scenarios: whole genome duplication in frogs and convergence of Nova-regulated splicing networks ( https://github.com/biocorecrg/ExOrthist).application/pdfeng© Yamile Márquez et al. This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were madeGenèticaGenòmicaExonsEmpalmament (Genètica)info:eu-repo/semantics/articlehttp://dx.doi.org/10.1186/s13059-021-02441-9info:eu-repo/semantics/openAccess