Supplemental Data

• rice_proteogenomics_non_novel_peptides.pro.bed - All non-novel (i.e. matching official annotations) peptides identified at 1% PSM FDR in proBed format, suitable for genome visualisation or opening in Spreadsheet software.
• rice_proteogenomics_novel_peptides.pro.bed - All final novel peptides identified, passing all filtration steps in proBed format, suitable for genome visualisation or opening in Spreadsheet software.
• Supplementary file 1 - Details of search results, genome mapping for novel peptides, filtration performed, data set sources and search parameters.
• Supplementary Results - Supplementary results on RNA Seq genome mapping, coding potential and BLAST.