The GOBASE database currently contains

• all mitochondrial nucleic acid and deduced protein sequences, obtained from the NCBI Entrez database
• extract functions for DNA and protein sub-sequences (coding region, gene, exon, intron, etc.)
• taxonomic information extracted from the NCBI Taxon database
• standardised gene names and product names, assigned by the GOBASE biology experts
• basic information about gene products such as type, function, enzyme complex
• hyperlinks to the Entrez/NCBI database, allowing lookups,  neighbors etc
• hyperlinks to the intron (Gutell) and ribosomal RNA secondary structure (Gutell, Schnare and Gray) databases
• hyperlinks to the MendelDB, a database of designations for sequenced plant genes
• hyperlinks to the ENZYME and EcoCyc enzymatic databases
• hyperlinks to the collections of mitochondrial genetic maps of the Organelle Genome Megasequencing Program (OGMP) and the Fungal Mitochondrial Genomes Project (FMGP)
• hyperlinks to the Protist Image Database (PID).

In addition to tying together the mitochondrial (and soon also chloroplast) sequence data that have been difficult to locate due to name inconsistencies and various errors, GOBASE allows highly sophisticated queries including the use of search criteria such as general function of product, taxonomic group, complete genome sequence, genetic code or, in near future, gene name synonyms.
A taxonomic grouping in addition to that of the NCBI taxonomic scheme has been established, to better reflect current views. Most importantly, the majority of data contained in GOBASE have been verified and rectified by experts, especially with respect to the consistency of gene and product nomenclature.