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RNA
RFPi

Part:BBa_K1062000:Design

Designed by: David Dinh   Group: iGEM13_UCSF   (2013-09-10)
Revision as of 19:43, 10 September 2013 by Dadinh (Talk | contribs) (→‎Design Notes)


Guide RNA (gRNA) target for RFP


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]


Design Notes

Part:BBa_K1062000 is a gRNA containing a CSY4 cut site and specifically targets the RFP gene.

A gRNA is a 102 nt sequence in which contains: a 20 nt sequence which will contain the sequence of the intended target, a 42 nt Cas9-binding hairping, and a 40 nt transcription terminator. GRNA 2.png An image show a general picture of a gRNA.

An important thing to note when using or creating a gRNA is that before the 20nt sequence, there must be a 3nt sequence called a PAM with this sequence 5'-NGG-3'. This 3nt sequence is what the Cas9 use as a binding signal. It is also important to point out that the PAM sequence is never in the gRNA itself. Pam.jpg

The CSY4 cut site is a sequence that is essential to the creation of the gRNA.

Sources

The RFP gRNA was retrieved from Stanley Qi's Lab at UCSF.

References

Currently Stanley Qi's lab is doing research in which hopes to use the CRISPR system in new applications.

[http://www.ncbi.nlm.nih.gov/pubmed/23452860 Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression ]

In the paper in the link provided, Stanley had shown to control gene expression using the CRISPR system using GFP and RFP as proof of concept. The RFP gRNA being used in our project is the same gRNA Stanley used in this paper.