The Bovine Gene Atlas (BGA) is a compendium of over 7.2 million unique 20 base transcript tags profiled from 81 tissues acquired from the cow “L1 Dominette 01449” , her male fetus, her 255 day old heifer calf, and her father. The BGA tags were generated on Illumina’s GA1 sequencing platform. L1D’s genome (build: 3.1) was sequenced at the Baylor College of Medicine and Genome Canada sequenced EST and full-length transcripts from the same tissues used for the BGA. We chose these tissues as a source of total RNA to minimize sequence differences between cDNA tags and genomic or expressed sequence and increase the probability of unequivocally mapping tags to build 3.1. The BGA is comprised of cardiovascular, digestive, endocrine, lymphatic, muscular, nervous, reproductive and urinary tissues sampled from animals in the fetal, juvenile, and adult stages of development. This cover is a portal to view the tags positioned on the 3.1 build using GBrowse, and a new database schema for positional and functional queries.