How about a basic codon usage program in commercial/academic packages? Asking you boss first first would save you time and money. If they do not know, which I find very common in Poland, please post the question on the forum.
(1) search the database for highly expressed genes (endogenous genes or plant virus) and use the entire 5'UTR.
(2) use 5'UTRs that have been reported for high level expression in other systems, the closer the phylogenetic relationship the better (examples; TMV omega leader, TEV leader, chalcone synthase 5'UTR ...).
(3) if designing an "articifical" sequence / selecting a sequence perform an analysis for dyad repeats (inverted repeats) that can form a stem-loop structure. The ATG should not involved in such a stem loop as this can reduce expression levels.
(4) if possible, test performance of your construct by transient gene expression (Agrobacteria, protoplast,...) to verify that your setup is working.
Good luck, Markus
Thank you for your answers.
@Markus Sack: It seems that you have knowledge in the field. I have one more question. To express gene of interest, do I need to add something at the end of my cDNA sequence, e.g. polyadenylation signal sequence? If yes, should I add it directly behind stop codon or further from it? At the moment my cDNA sequence has only stop codon at the end.
You absolutely need a 3'UTR with poly-adenylation sequence! Please consult the literature and familiarize yourself with plant expression constructs. Also look into the use of reporter genes and transient gene expression technology to evaluate your gene expression cassette. Don't go for transgenic plants before you have seen expression in transient assay as this can cost you a lot of time and effort.
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