Difference between revisions of "Laurmagee: 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”=== | ||
| − | ==-10 box== | + | ==-10 box of the promoter== |
#cat [file] | sed "s/[ct]at[at]at/ -10 box/g" | #cat [file] | sed "s/[ct]at[at]at/ -10 box/g" | ||
#cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | #cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | ||
| − | ==Added -35 box== | + | ==Added -35 box of the promoter== |
#cat [file] | sed "s/tt[gt]ac[at]/ -35 box/g" | #cat [file] | sed "s/tt[gt]ac[at]/ -35 box/g" | ||
#cat [file] | sed "s/tt[gt]ac[at]/ <minus35box>&<\/minus35box> /g" | #cat [file] | sed "s/tt[gt]ac[at]/ <minus35box>&<\/minus35box> /g" | ||
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==Added Ribosome Binding Site== | ==Added Ribosome Binding Site== | ||
#cat [file] | sed "s/gag/ <rbs>&<\/rbs> /g" | #cat [file] | sed "s/gag/ <rbs>&<\/rbs> /g" | ||
| − | #cat [file] | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/ | + | #cat [file] | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g" |
| + | #cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g" | sed "s/"s/tt[gt]ac[at]<\/minus35box>/ <minus35box>&/g" | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g" | ||
==Added Start Codon== | ==Added Start Codon== | ||
| − | #cat [file] | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g" | sed "2s/atg/ <start_codon>&<\/start_codon> /1" | + | #cat [file] | sed "2s/atg/ <start_codon>&<\/start_codon> /1" |
| + | #cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g" | sed "s/"s/tt[gt]ac[at]<\/minus35box>/ <minus35box>&/g" | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g" | sed "2s/atg/ <start_codon>&<\/start_codon> /1" | ||
| + | |||
| + | ==Added Stop Codon== | ||
| + | #cat [file] | | ||
| + | #cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g" | sed "s/"s/tt[gt]ac[at]<\/minus35box>/ <minus35box>&/g" | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g" | sed "2s/atg/ <start_codon>&<\/start_codon> /1" | ||
| + | |||
| + | ==Transition Start Site== | ||
| + | |||
| + | ==Terminator== | ||
| + | |||
| + | What is the exact mRNA sequence that is transcribed from this gene? | ||
| + | What is the amino acid sequence that is translated from this mRNA? | ||
[[Category: Journal Entry]] | [[Category: Journal Entry]] | ||
| + | [[User:Laurmagee|Laurmagee]] ([[User talk:Laurmagee|talk]]) 17:13, 19 September 2013 (PDT) | ||
Revision as of 00:13, 20 September 2013
Contents |
Transcription and Translation “Taken to the Next Level”
-10 box of the promoter
- cat [file] | sed "s/[ct]at[at]at/ -10 box/g"
- cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g"
Added -35 box of the promoter
- cat [file] | sed "s/tt[gt]ac[at]/ -35 box/g"
- cat [file] | sed "s/tt[gt]ac[at]/ <minus35box>&<\/minus35box> /g"
- cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed "s/................. <minus10/ <\/minus35box> &/g"
- cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g"
- cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g" | sed "s/"s/tt[gt]ac[at]<\/minus35box>/ <minus35box>&/g"
Added Ribosome Binding Site
- cat [file] | sed "s/gag/ <rbs>&<\/rbs> /g"
- cat [file] | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g"
- cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g" | sed "s/"s/tt[gt]ac[at]<\/minus35box>/ <minus35box>&/g" | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g"
Added Start Codon
- cat [file] | sed "2s/atg/ <start_codon>&<\/start_codon> /1"
- cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g" | sed "s/"s/tt[gt]ac[at]<\/minus35box>/ <minus35box>&/g" | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g" | sed "2s/atg/ <start_codon>&<\/start_codon> /1"
Added Stop Codon
- cat [file] |
- cat [file] | sed "s/[ct]at[at]at/ <minus10box>&<\/minus10box> /g" | sed -r "s/.{17} <minus10/ <\/minus35box> &/g" | sed "s/"s/tt[gt]ac[at]<\/minus35box>/ <minus35box>&/g" | sed "s/gag/ <rbs>&<\/rbs> /g" | sed "s/<\/rbs>/&\n/g" | sed "2s/atg/ <start_codon>&<\/start_codon> /1"
Transition Start Site
Terminator
What is the exact mRNA sequence that is transcribed from this gene? What is the amino acid sequence that is translated from this mRNA?Laurmagee (talk) 17:13, 19 September 2013 (PDT)
