Plant homologs of rice genes
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aRice homologs were determined by searching against the predicted rice proteome (which consists of 21,403 putative genes, 6913 expressed genes, 14,337 hypothetical genes, and 13,237 TE-related genes) using TBLASTN and a cutoff of E-value of <1 × 10−5.
bFor the search with the rice TAs, the percentage of putative, expressed, and hypothetical genes solely reflect high identity alignments to the rice genes using PASA2 and does not include all expression support used in functional annotation of rice genes (MPSS, SAGE, proteomic). Furthermore, ∼780,000 rice ESTs have been released since the functional annotation assignments were made in Release 4, and 3.63% (520) of the hypothetical genes now have cognate rice transcripts support. The annotation of these genes will be promoted to “expressed genes” in the next release of our annotation.
