User:Roshini Zachariah: Difference between revisions
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==Module 1== | ==Module 1== | ||
[[ | [[TRPinkFa07_oligodesign.doc|Oligo Design]]<br /> | ||
[[ | [[TRPinkFa07_seq_result.txt|Sequencing results]]<br /> | ||
[[ | [[TRPinkFa07_proteinalignment.rtf|Protein Alignment]]<br /> | ||
Super M13 | ==Super M13== | ||
{|border="1" | {|border="1" | ||
!Gene!!Thoughts | !Gene!!Thoughts | ||
Revision as of 12:57, 2 October 2007
Name: Roshini Zachariah Status: Class of 2009 in Biological Engineering at MIT Interests: Music, ESP, cookies, traveling cool places and meeting interesting people...and of course, BE.
Contact:
- roshiniATMITDOTEDU
- 781.985.5383
Module 1
Oligo Design
Sequencing results
Protein Alignment
Super M13
| Gene | Thoughts |
|---|---|
| p1 | Remove promoter, RBS from p6 ORF. Untangle p1 and p11 from each other (different starts, same stop) |
| p2 | Untangle p2 and p10 from each other (different starts, same stop) |
| p3 | Remove promoter, RBS from p8 (possible overlap) |
| p4 | Remove p4 from p11, p1 ORF. |
| p5 | Remove promoter, RBS from p2, p10 ORF. |
| p6 | Remove promoter, RBS from p3 ORF. |
| p7 | Remove promoter, RBS from p5 ORF. Remove overlap with p9 ORF. |
| p8 | Remove promoter, RBS from p8 ORF. |
| p9 | Remove promoter, RBS and start codon from p7 ORF. Remove overlap with p8 ORF. |
| p10 | Untangle p2 and p10 from each other (different starts, same stop) |
| p11 | Untangle p1 and p11 from each other (different starts, same stop) |
Problems
- Find way of rearranging genome with minimal AA insertion to facilitate restriction digests and ligation (best outcome: none).
- Make sure that since many promoters are located within ORFs (and thus must be mostly conserved) see if there can be silent or sense mutations made to change promoter sufficiently to discourage binding of RNA polymerase but not to [significantly] change AA sequence.
