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Table 1 Overview and content of the TRAPID reference databases

From: TRAPID: an efficient online tool for the functional and comparative analysis of de novoRNA-Seq transcriptomes

Reference database Functional annotation Clade #Species #Proteins Gene family information
OrthoMCL-DB version 5 PFAM domains All 150 1,398,546 OrthoMCL clustering
   Alveolata 15 98,796  
   Amoebozoa 4 41,930  
   Archaea 16 30,233  
   Bacteria 36 112,059  
   Euglenozoa 9 107,034  
   Eukaryota 98 1,256,264  
   Fungi 24 680,778  
   Metazoa 29 529,788  
PLAZA 2.5 Gene Ontology, InterPro domains Viridiplantae (green plants) 25 780,667 TribeMCL clustering + integrative orthologs
   Angiosperms 18 671,950  
   Eudicots 13 480,106  
   Monocots 5 191,844