An Amborella trichopoda genome sequence is being generated as the singular evolutionary reference genome to help elucidate characteristics of the ancestral genome for all flowering plants. Amborella trichopoda is the sole extant member of the sister lineage to all other flowering plants. A first draft annotation of the genes and retrotransposons of the genome has been generated with the DAWGPAWS annotation pipeline. This initial annotation will be presented along with the Amborella genome browser which will serve as the public portal for access to these annotation results. The GBrowse based genome browser includes integrated tools for comparative analyses aimed at reconstructing genome structure and gene content in the most recent common ancestor of all flowering plants. Additionally we have extended GBrowse to allow for visualization of the biologically significant features of individual transposable element insertions. Continued refinements of the genome annotation will be made publicly available via this browser as the genome annotation effort progresses.