Search for Putative Orthologous Groups (POGs) containing genes in Arabidopsis thaliana, Zea mays, Oryza sativa, and/or Populus trichocarpa that meet the following criteria:
POGs 2.0, is a relational database designed to facilitate cross-species inferences about gene functions and gene models in plants. The database integrates data from rice (Orza sativa), maize (Zea mays), Arabidopsis thaliana, and Poplar (Populus trichocarpa) by placing the complete predicted proteomes into "putative orthologous groups" (POGs). POGs were imported from Gramene’s ENSEMBL orthology prediction output and from Plaza 2.5 (Van Bel et al, Plant Phys 2012) (OrthoMCL-calculated orthologous groups). We welcome suggestions for additional orthology prediction algorithms to incorporate into future versions of this resource.
Each POG entry includes putative orthologs annotated with gene descriptions imported from species-specific databases, graphical representations of conserved protein domains, phylogenetic trees showing closely-related proteins, intracellular targeting predictions and verified targeting data from PPDB. The database can be queried by Interpro domain keyword or ID, genemodel or transcript accessions, known or predicted intracellular location, or any combination of the above. TargetP v1.03, Predotar 1.1. and NucPred v1.1 were used to predict intracellular locations.
Development of this database was funded by grant IOS- 0922560 from the National Science Foundation.
If you use this resource in published work, please cite: M Tomcal, N Stiffler, and A Barkan (2013) POGs2: A Web Portal to Facilitate Cross-Species Inferences About Protein Architecture and Function in Plants. PLOS One, e82569.