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Currently, GREAT supports recent assemblies of the well-annotated human (UCSC hg19 and UCSC hg18) and , mouse (UCSC mm9) and zebrafish mouse (UCSC danRer6) genomes. GREAT will be available for the new zebrafish Zv9/danRer7 assembly soon. GREAT can be expanded to include additional well-annotated genomes (such as Zebrafish), and can also be expanded into poorly-characterized genomes by carefully projecting annotations from well-annotated genomes. We hope to gradually expand the set of species we support.

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