IGEM:Harvard/2006/Container Design 4/Latch Sequences

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Contents

Latches

Design 4 Schematics With 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

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