Regulatory
PREmR34

Part:BBa_K5097001

Designed by: Kelly Acen, Marie Box, Alexia Darby, Jena Dookie, Blake Dieckman, Runya Chaora, Chris Dorce, Adrianna Dugan, Elber Lopez-Hernandez, kayla VanPelt, Makenna Ventuleth   Group: iGEM24_Oneonta   (2024-09-30)
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pH Response Element riboswitch mR34

In 1990, Bingham et al. identified a locus within E.coli whose activity was tied to pH changes, which they coined Alx. It exhibited increased expression at pH 8.5 (1). This activity was further characterized by Nechooshtan et. al., who determined that the Alx promoter and riboswitch are responsible for increased Alx expression in response to high pH (2). The Alx promoter and riboswitch have been previously entered into the parts repository by Team NAXI_GRAS under part number BBa_K2348000.

Pham et. al. reported that the putative RBS within the PRE riboswitch is of weak affinity. These researchers designed an improved version, PREmR34, which contains the strong RBS (Bba_B0034) (3). We utilized RNAfold (4) to model the structure of the PREm34, which is, expected, very similar to that of PRE. We also performed a Pairwise alignment on the sequences to visualize changes (5).


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
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 126


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