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. 2018 Sep 19;(139):58268. doi: 10.3791/58268
A. gRNA cloning and sequencing
bnl-lexA gRNA fwd         TATATAGGAAAGATATCCGGGTGAACTTCgTGTATCTGCGAT GCCCCTCAGTTTTAGAGCTAGAAATAGCAAG
bnl-lexA gRNA rev ATTTTAACTTGCTATTTCTAGCTCTAAAACTCCCGCAATATCTGAAGG ATcGACGTTAAATTGAAAATAGGTC
T3 primer used for sequencing CAATTA ACCCTCACTAAAGG-3'
Note: nucleotides underlined anneal to U6 promoter or gRNA core on pCFD4 vector, the lowercase g/c was added to aid U6 promoter-dependent transcription
B. HDR donor construction
bnl N-F_pUC19 AATTCGAGCTCGGTACtgtggtctttgaggctggaac
bnl-lexA-N-R    tCCGcaagtCagtAGgctgccgcgtccttcgccggaGCCCGCAGATACAAGGCCC C
lexA-F CTactGacttgCGGaGAtGTcGAaGAGAACCCtGGCCCtATGCCACCCAA GAAGAAGC
lexA-R CTAAACGAGTTTTTAAGCAAACTCACTC
bnl lexA-C Fwd TAAAAACTCGTTTAGACGGGATGGCGTTGTCAAC
bnl C-R_pUC19 GCCAAGCTTGCATGCCtcgcataattgccgcctgg
Note: nucleotides in capital overlap with pUC19 vector for Gibson Assembly, nucleotides underlined were sequence overhang for T2A peptide addition.
C. HDR screening and sequencing
bnl-lexA scr fwd1 GTGGCGCACGCCCAATAAAC
bnl-lexA scr rev1 GATCCCAGCCAATCTCCGTTG
bnl-lexA scr fwd2 CAACGGAGATTGGCTGGGATC
bnl-lexA scr rev2 CTGGCCAACTGTAGGGAAGTC
ends-in check rev3 GCAATGTTATGCAATGCGTTGAC
bnl-lexA seq fwd3 CACTTGTCGCCCATATTGATACAATTG
NOTE: These primers were used for PCR screening and sequencing, the approximate locations of primer binding sites are shown in Figure 5A as fwd1-2 and rev1-3.
D. RT-PCR analysis
RT-f GATATGGATTTCTCCGCTTTGCTG
RT-r CCATGCAGAGATACAGGCAAGTG