Data from Coral Dark Gene analysis

Results files from manuscript "Cosmopolitan Gene Families With Known Functions Are Hotspots for the Evolution of Novel Genes in Stony Corals" (Genome Biology and Evolution, Volume 18, Issue 4, April 2026, evag072, https://doi.org/10.1093/gbe/evag072).

Orthogroups_analysis.tar.gz HTML files displaying all expression, protein structure, and phylogeny results for each of the selected dark orthogroups.

AlphaFold2.tar.gz AlphaFold2 PDB files with the inferred structures of each of the selected dark orthogroup's representative sequences.

OGs.tar.gz Files listing proteins in each orthogroup, the annotations assigned to each protein, and the size and classification (restricted/shared, taxonomic rank) assigned to each orthogroup.

Datasets.tar.gz Files from each of the 205 coral and outgroup genome and transcriptome datasets used in this study. For transcriptomes this generally includes protein and CDS (if produced by authors) files. For genomes this generally includes protein, CDS (if produced by authors), assembly (if applicable), and gene gff3 (if applicable) files.

Montipora_sp1_aff_capitata_ULFMv1_Predicted_Genes.tar.gz Files used for, and producted by, gene prediction using BRAKER for the Montipora sp1 aff capitata ULFMv1 dataset. README also provided with commands and versions used for each program.