Difference between revisions of "Kmeilak Week 4"
From LMU BioDB 2013
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===Transcription and Translation “Taken to the Next Level”=== | ===Transcription and Translation “Taken to the Next Level”=== | ||
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| + | cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box> & <\/minus10box> /g" | sed -r "s/.{17} <minus10box>/ <\/minus35box> &/g" | sed -r "s/.{6} <\/minus35box>/ <minus35box> &/g" | sed -r "s/ <minus10box> .{6} <\/minus10box> .{5}/& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> ...*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2" | ||
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*sequence of -35 box | *sequence of -35 box | ||
tttact | tttact | ||
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| − | |||
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*sequence of -10 box | *sequence of -10 box | ||
cattat | cattat | ||
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*transcription start site base pair | *transcription start site base pair | ||
c | c | ||
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*sequence of ribosome binding site | *sequence of ribosome binding site | ||
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*start codon | *start codon | ||
| − | + | atg | |
| − | * | + | *stop codon |
| − | + | tga | |
| − | * | + | *terminator sequence |
| + | |||
| + | aaaaggtcggtttaaccggcctttttatt | ||
Revision as of 04:24, 20 September 2013
Week 4
Transcription and Translation “Taken to the Next Level”
1.
cat infA-E.coli-K12.txt | sed "s/cat[at]at/ <minus10box> & <\/minus10box> /g" | sed -r "s/.{17} <minus10box>/ <\/minus35box> &/g" | sed -r "s/.{6} <\/minus35box>/ <minus35box> &/g" | sed -r "s/ <minus10box> .{6} <\/minus10box> .{5}/& <tss> /g" | sed "s/ <tss> ./& <\/tss> /g" | sed "s/gagg/ <rbs> & <\/rbs>\n/g" | sed "2s/atg/ <start_codon> & <\/start_codon> /1" | sed -r "2s/<\/start_codon> ...*t[ag][ag]/& <\/stop_codon> /g" | sed "2s/... <\/stop_codon>/ <stop_codon> &/g" | sed "2s/aaaaggt/ <terminator> &/g" | sed "2s/tttt..../& <\/terminator> /2"
- sequence of -35 box
tttact
- sequence of -10 box
cattat
- transcription start site base pair
c
- sequence of ribosome binding site
gagg
- start codon
atg
- stop codon
tga
- terminator sequence
aaaaggtcggtttaaccggcctttttatt
