IGEM:Harvard/2006/Container Design 4/Latch Sequences: Difference between revisions
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<li>[[IGEM:Harvard/2006/Container_Design_4|Design 4 Overview]]</li> | |||
<li>[[IGEM:Harvard/2006/Container_Design_4/Schematics|Schematics]]</li> | |||
<li>[[IGEM:Harvard/2006/Container_Design_4/Scaffold Sequences|Scaffold]]</li> | |||
<li>[[IGEM:Harvard/2006/Container_Design_4/Python Code|Python Code]]</li> | |||
<li id = "current">[[IGEM:Harvard/2006/Container_Design_4/Latch Sequences|Latches]]</li> | |||
<li>[[IGEM:Harvard/2006/Container_Design_4/Oligos|Final Oligo List]]</li> | |||
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==Latches== | ==Latches== | ||
===Two-Oligo Latch Sequences=== | ===Two-Oligo Latch Sequences=== | ||
Revision as of 09:42, 12 July 2006
Latches
Two-Oligo Latch Sequences
- Latch strands: Ts---any necessary additional bps---15bp overlap---12bp random toehold
- Displacement strands: 5'---12 bp pairing w/ toehold---15 bp pairing w/ rest of oligo, except the T spacers---3'
*latch1B1: barrel strand 10, oligo 60 TTTTTTT GTAACGAAGTTGCAC CACACAACGCTA *disp1B1: displaces latchB1 TAGCGTTGTGTG GTGCAACTTCGTTAC *latch1L1: lid1 strand 6, oligo 2 TTTTTTT GTGCAACTTCGTTAC ACGAGTAATGCG *disp1L1: displaces latchL1 CGCATTACTCGT GTAACGAAGTTGCAC --- *latch1B2: barrel strand 24, oligo 43 TTTTTTTTTTTTTT GTACGCATGGCAAAT TACCACTCTAGC *disp1B2: displaces latchB2 GCTAGAGTGGTA ATTTGCCATGCGTAC *latch1L2: lid1 strand 7, oligo 29 TTTTTTTTTTTTTT ATTTGCCATGCGTAC CGGTTAGATAGC *disp1L2: displaces latchL2 GCTATCTAACCG GTACGCATGGCAAAT --- *latch1B3: barrel strand 10, oligo 21 TTTTTTTTTT TCGAGTTGACAAAGC TACCGGTTCAAG *disp1B3: displaes latchB3 CTTGAACCGGTA GCTTTGTCAACTCGA *latch1L3: lid2 strand 6, oligo 2 TTTTTTTTTTT GCTTTGTCAACTCGA ACTGGCCCTTAA *disp1L3: displaces latchL3 TTAAGGGCCAGT TCGAGTTGACAAAGC --- *latch1B4: barrel strand 24, oligo 27 TTTTTTTTTTTTTT CAGGATACCATCATC TACTAACCGGTG *disp1B4: displaces latchB4 CACCGGTTAGTA GATGATGGTATCCTG *latch1L4: lid2 strand 7, oligo 29 TTTTTTTTTTTTTT GATGATGGTATCCTG GTGGAGTAGTTG *disp1L4: displaces latchL4 CAACTACTCCAC CAGGATACCATCATC
Four-Oligo Latch Sequences
- FIRST ATTACHED-to-BARREL OLIGO:
- 5'---3Ts---Ts for spacers---7 rand bp (called '1A')---8 rand bp (called '1B')---3'
- FIRST ZIPPER OLIGO:
- 5'---8bp complementing 2A---7 bp reverse complementing 1A--12 rand bp toehold---3'
- SECOND ZIPPER OLIGO:
- 5'---8bp reverse complementing 1B---7 bp complementing 2B--12 rand bp toehold---3'
- SECOND ATTACHED-to-BARREL OLIGO:
- 3'---8 rand bp (called '2A')---8 rand bp (called '2B')---Ts for spacers---3Ts---5'
- STRAND DISPLACERS FOR ZIPPER OLIGOS:
- 5'---12 bp pairing w/ toehold---15 bp pairing w/ the rest of the zipper oligo---3'
*latch2B1: barrel strand 10, oligo 60 TTTTTTT CCGGTGC AGAAGTTT *latch2B1z: zipper oligo attached to latch2B1 GTATGGTC GCACCGG TGAGTACCGCTA *latch2L1: lid1 strand 6, oligo 2 TTTTTTT TAGAGAC GACCATAC *latch2L1z: zipper oligo attached to latch2L1 AAACTTCT GTCTCTA TCTCTTCAGTCG *disp2B1z: displaces latch2B1z TAGCGGTACTCA CCGGTGC GACCATAC *disp2L1z: displaces latch2L1z CGACTGAAGAGA TAGAGAC AGAAGTTT --- *latch2B2: barrel strand 24, oligo 43 TTTTTTTTTTTTTT GGATCGG TACATTGT *latch2B2z: zipper oligo attached to latch2B2 GTATTCGA CCGATCC GGACTTTCTAGG *latch2L2: lid1 strand 7, oligo 29 TTTTTTTTTTTTTT AGGCAAC TCGAATAC *latch2L2z: zipper oligo attached to latch2L2 ACAATGTA GTTGCCT GGTTAAGGGTAC *disp2B2z: displaces latch2B2z CCTAGAAAGTCC GGATCGG TCGAATAC *disp2L2z: displaces latch2L2z GTACCCTTAACC AGGCAAC TACATTGT --- *latch2B3: barrel strand 10, oligo 21 TTTTTTTTTT GGCACTC CTACAATT *latch2B3z: zipper oligo attached to latch2B3 GTTGGTCT GAGTGCC GCACGGCAATAA *latch2L3: lid2 strand 6, oligo 2 TTTTTTTTTTT GTAGTAG AGACCAAC *latch2L3z: zipper oligo attached to latch2L3 AATTGTAG CTACTAC CGAAGGCTATTC *disp2B3z: displaces latch2B3z TTATTGCCGTGC GGCACTC AGACCAAC *disp2L3z: displaces latch2L3z GAATAGCCTTCG GTAGTAG CTACAATT --- *latch2B4: barrel strand 24, oligo 27 TTTTTTTTTTTTTT GACGATA GGGAAACA *latch2B4z: zipper oligo attached to latch2B4 TGATCTTC TATCGTC GTTGTGAGCGAT *latch2L4: lid2 strand 7, oligo 29 TTTTTTTTTTTTTT CCTACGA GAAGATCA *latch2L4z: zipper oligo attached to latch2L4 TGTTTCCC TCGTAGG TCAGTGCTTGTG *disp2B4z: displaces latch2B4z ATCGCTCACAAC GACGATA GAAGATCA *disp2L4z: displaces latch2L4z CACAAGCACTGA CCTACGA GGGAAACA
Latch-Including Schematics
-
Barrel schematic showing where oligos need to be cut and latches added
(ai file) -
Lid schematic showing where oligos need to be cut and latches added
(ai file) -
Updated barrel schematic showing latch position and oligo cutting
(ai file) -
Updated lid schematic showing latch position and oligo cutting
(ai file) -
Final barrel schematic with latch and aptamer positions
-
Final lid 1 or 2 schematic with latch positions
