The predicted amino acid sequence from the RZW gene of Brachypodium distachyon, was given by two different programs. FGENESH provides an ab initio method, while Phytozome compares the RZW gene to known expressed tag sequences (ESTs) in B. distachyon. The predictions differed in one area. The FGENESH predicted protein had a string of four amino acids: KSLQ, in the middle, while Phytozome predicted that instead of these four, there was a chain of 109 amino acids. All amino acids before and after this noted difference were the same. Furthermore, two contiguous sequences were made from the bank of ESTs. These sequences had a gap of a few hundred base pairs in between them; there was a part of the gene that was unaccounted for by ESTs. This may help to explain the difference in predicted protein sequence. Either way, the Phytozome predicted protein sequence is trusted more, because it analyzes cDNA libraries, as opposed to just known trends in mRNA splicing.
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