Description of the strategy used to construct the conceptual transcript. The high-quality genome assembly of 93-11 (Oryza sativa L. subsp. indica;  and a collection of transcriptome information (FL-cDNA, UniGene, and ST; see Materials and Methods) were used for the construction of virtual transcripts. When the transcript sequences extend beyond the predicated coding sequence were available, the UTR sequences were aligned and determined (A). When the information was not available, the theoretical 3' UTR sequences were determined based on a stepwise (100-, 200-, 300-, 400-, and 500 bp) assessment of the genome sequences and added after the stop codons (B). Nearly 58.7% of the assigned tags have a 3'-UTR length of 300 bp.