Jamey edited introduction.md  over 10 years ago

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  Working meetings were posted through Counter Culture Labs and Berkeley Bio Labs (two groups with over 100 members each) on meetup.com and met regularly every week or two over the course of three months.  In eukaryotic cells, such as plants, the 5' cap of the mRNA transcript acts as the ribosome binding site. Another sequence within the mRNA, termed the Kozak sequence, acts as the signal for translation initiation. Additionally, some genes are encoded within the chloroplast genome. Due to the evolutionarily bacterial origins of the chloroplast, its transcripts contain distinct consensus sequences compared to the transcripts from the nuclear genome. Thus, instead of the 5' cap, there is a short motif called the Shine-Delgarno sequence where the ribosome binds and then initiates translation generally 8 nucleotides downstream. Although there has been some experimental work on ribosome binding sites and Kozak sequences in plants [refs], [refs, perhaps Lutcke et al EMBO J 1987],  genomic surveys have not been performed. Here we use combine RNA- and protein expression data (publicly available) for both nuclear and chloroplast genes in order to describe the ribosome binding and translation initiation sequence motifs.