IGEM:Harvard/2006/Container Design 4/Latch Sequences
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Contents
Latches
Design 4 Schematics With Latches
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
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