How were rice and Arabidopsis peptides aligned?
The Arabidopsis and rice peptides were downloaded from NCBI RefSeq and aligned to the (unmasked) genome by gapped BLASTX; high-scoring sequence pairs (HSP’s) are shown. Note that gapped BLAST was used to increase sensitivity, so that in many cases the HSP (shown in yellow) spans adjacent exons and the intervening intron(s). Also, small exons (evident from the maize/sorghum/sugarcane ESTs) are often missed.
