Difference between revisions of "Part:BBa K4438129"
 
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<partinfo>BBa_K4438129 short</partinfo>
 
<partinfo>BBa_K4438129 short</partinfo>
  
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FASTmiR stands for Fluorescence Aptamer Sensor For Tracking miRNAs. It is an RNA-based sensor for in-vitro quantification of miRNAs.This part is the expression cassette for  <partinfo>BBa_K4438109</partinfo>, with <partinfo>BBa_J64997</partinfo> upstream and <partinfo>BBa_K731721</partinfo> downstream, along with the spacer sequences <partinfo>BBa_K3831027</partinfo>(at 5’ end) and <partinfo>BBa_K4438136</partinfo>(at 3’end). FASTmiR-146a-D5_s, after transcription, binds to miR-146a, the transcription product of <partinfo>BBa_K4438501</partinfo>. The binding of these to RNAs will lead to the revelation of a binding site for DFHBI, a fluorophore, where it gets trapped and shows fluorescence.
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FASTmiR stands for Fluorescence Aptamer Sensor For Tracking miRNAs. It is an RNA-based sensor for in-vitro quantification of miRNAs.This part is the expression cassette for  <partinfo>BBa_K4438109</partinfo>, with <partinfo>BBa_J64997</partinfo> upstream and <partinfo>BBa_K731721</partinfo> downstream, along with the spacer sequences <partinfo>BBa_K3831027</partinfo>(at 5’ end) and <partinfo>BBa_K4438136</partinfo>(at 3’end). FASTmiR-146a-D5_s, after transcription, binds to miR-146a, the transcription product of <partinfo>BBa_K4438151</partinfo>. The binding of these to RNAs will lead to the revelation of a binding site for DFHBI, a fluorophore, where it gets trapped and shows fluorescence.
  
  

Latest revision as of 10:05, 12 October 2022

FASTmiR-146a-D5_s

FASTmiR stands for Fluorescence Aptamer Sensor For Tracking miRNAs. It is an RNA-based sensor for in-vitro quantification of miRNAs.This part is the expression cassette for BBa_K4438109, with BBa_J64997 upstream and BBa_K731721 downstream, along with the spacer sequences BBa_K3831027(at 5’ end) and BBa_K4438136(at 3’end). FASTmiR-146a-D5_s, after transcription, binds to miR-146a, the transcription product of BBa_K4438151. The binding of these to RNAs will lead to the revelation of a binding site for DFHBI, a fluorophore, where it gets trapped and shows fluorescence.


Usage and Biology

This part can be used for the detection of miR-146a, which proves to be a biomarker for many diseases. A promoter sequence added in the beginning enhances its usage in both in-vivo and in-vitro conditions. The OFF(A) and ON(B) structure for the sensor was generated as given:

T--IISER-Tirupati India--miRNA 146 5.png

Sequence and Features


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal SpeI site found at 80
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal SpeI site found at 80
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal SpeI site found at 80
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal SpeI site found at 80
  • 1000
    COMPATIBLE WITH RFC[1000]


Notes

The split position of the complementary sequence in the sensor is CTGAAGA….ACTGAATTTCAGAGG

References

Huang, K., Doyle, F., Wurz, Z. E., Tenenbaum, S. A., Hammond, R. K., Caplan, J. L., & Meyers, B. C. (2017). FASTmiR: an RNA-based sensor for in vitro quantification and live-cell localization of small RNAs. Nucleic acids research, 45(14), e130-e130