Part:BBa_K4664010

Padlock-miR-223-M1

Padlock Padlock-miR-223 is the corresponding padlock chosen for the miR-223 biomarker.

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]

Background

In order to determine the PLP sequence that yields the best reaction kinetics, we designed padlocks with single, double, and several mismatches at the miRNA binding sites. Padlock probes miR-223-M1-M5（Padlocks M1-M5 ） are single base pair mismatches.

Design

Sequence:
TCAATTACACGAGATACCCTAACCATCGATCGTCGCCGTCCAGCTCGACCAACTCAGCTTG

Results

The following figure contains results for Padlocks M1-5, in comparison with Padlock-223.

Figure 1. Padlocks M1-5.

References

Jin, J., Vaud, S., Zhelkovsky, A., Pósfai, J., & McReynolds, L. A. (2016). Sensitive and specific miRNA detection method using SplintR Ligase. Nucleic Acids Research, 44(13), e116. https://doi.org/10.1093/nar/gkw399
He, Y., Wen, Y., Tian, Z., Hart, N. T., Han, S., Hughes, S. J., & Zeng, Y. (2023b). A one-pot isothermal Cas12-based assay for the sensitive detection of microRNAs. Nature Biomedical Engineering. https://doi.org/10.1038/s41551-023-01033-1