Difference between revisions of "Kmeilak Week 4"

Revision as of 03:35, 20 September 2013

Week 4

Transcription and Translation “Taken to the Next Level”

• -35 box of the promoter

cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box>&<\/minus10box> /g" | sed "s/................. <minus10box>/<\/minus35box>& /g" | sed "s/......<\/minus35box>/ <minus35box>&/g"

• sequence of -35 box

tttact

• -10 box of the promoter

cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box>&<\/minus10box> /g" 

• sequence of -10 box

cattat

• transcription start site

cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box>&<\/minus10box> /g" | sed "s/ <minus10box> ...... <\/minus10box> ...../& <tss> /g"

• transcription start site base pair

c

• ribosome binding site

cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box>&<\/minus10box> /g" | sed "s/................. <minus10box>/<\/minus35box>& /g" | sed "s/......<\/minus35box>/ <minus35box>&/g" | sed "s/gagg/<rbs>&<\/rbs>/g"

• sequence of ribosome binding site

gagg

• start codon

cat infA-E.coli-K12.txt | sed "2s/atg/ <start_codon>&<\/start_codon> /1"

• start codon

atg

• stop codon