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Part:BBa_K779500

Designed by: Kristjan Eerik Kaseniit   Group: iGEM12_MIT   (2012-09-29)

Long reporter top strand with bulge MammoBlock

Long reporter top strand with a 4 nucleotide bulge, binds to Part:BBa K779502.

Modifications: 5' Iowa Black RQ quencher, 3' Alexa 488 florophore, all bases modified with 2'O Methyl (ordered as a DNA oligo with Us instead of Ts).

IDT DNA oligo order: /5IAbRQ/mCmAmCmCmCmAmCmUmCmCmCmAmCmUmUmCmUmCmCmCmAmCmCmA/3AlexF488N/

MIT iGEM 2012 is still collecting data on this part.

Usage and Biology

Used as an alternative quencher (top) strand to Part:BBa K779501. The only difference is a 4 nucleotide bulge, which is supposed to protect the annealed complex (below) from degradation by the RISC complex (see the Design section).

When annealed to Part:BBa K779502 forms a tagged reporter for strand displacement reactions (input Part:BBa_K779503, negative control Part:BBa_K779504).

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


[edit]
Categories
Parameters
n/aLong reporter top strand with bulge MammoBlock