Plant viruses hijack host translation machineries to drive protein synthesis that causes viral disease in crops. To gain insight into pathogenic mechanisms, we investigated the sites on viral mRNAs that can initiate protein translation and found novel multiple initiation sites that encode new viral factors important for disease symptom development. Our findings suggest that the coding capacity of plant virus genomes are underappreciated and will facilitate investigations of other plant viruses and aid in building novel antiviral strategies.