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Plasmid Files

JDS246

Plasmid for expressing FLAG®-tagged human codon-optimized Cas9 in mammalian cells.

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JDS246 Sequence and MapJDS246.dna
Map and Sequence File   
Sequence Author:  Joung Lab / Addgene #43861
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 CMV enhancer SpeI (7380) MluI (7359) SgrDI (7125) ScaI (6684) PvuI (6574) BsaI (6265) AhdI (6204) BspQI - SapI (5195) BbsI (4864) PmeI (4653) AgeI (4623) PstI (4617) PsiI (4571) PaeR7I - XhoI (4539) BamHI (4513) BmtI (4055) NheI (4051) EagI - NotI - SacII (370) BstZ17I (623) BmgBI (628) MscI (679) Bsu36I (859) BstEII (1123) StuI (1148) BsiWI (1217) KasI (1350) NarI (1351) SfoI (1352) PluTI (1354) BfuAI - BspMI (1477) BsrGI (1967) PfoI * (2225) EcoRV (2250) PshAI (2391) FspAI (3359) BsgI (3727) JDS246 7614 bp
SpeI  (7380)
1 site
A C T A G T T G A T C A
MluI  (7359)
1 site
A C G C G T T G C G C A
SgrDI  (7125)
1 site
C G T C G A C G G C A G C T G C
ScaI  (6684)
1 site
A G T A C T T C A T G A
PvuI  (6574)
1 site
C G A T C G G C T A G C
BsaI  (6265)
1 site
G G T C T C N C C A G A G N ( N ) 4

Sticky ends from different BsaI sites may not be compatible.
BsaI can be used between 37°C and 50°C.
AhdI  (6204)
1 site
G A C N N N N N G T C C T G N N N N N C A G

The 1-base overhangs produced by AhdI may be hard to ligate.
Sticky ends from different AhdI sites may not be compatible.
BspQI  (5195)
1 site
G C T C T T C N C G A G A A G N N N N

Sticky ends from different BspQI sites may not be compatible.
SapI  (5195)
1 site
G C T C T T C N C G A G A A G N N N N

Sticky ends from different SapI sites may not be compatible.
SapI gradually settles in solution, so a tube of SapI should be
mixed before removing an aliquot.
BbsI  (4864)
1 site
G A A G A C N N C T T C T G N N ( N ) 4

Sticky ends from different BbsI sites may not be compatible.
BbsI gradually loses activity when stored at -20°C.
PmeI  (4653)
1 site
G T T T A A A C C A A A T T T G
AgeI  (4623)
1 site
A C C G G T T G G C C A

AgeI quickly loses activity at 37°C, but can be used at 25°C for
long incubations.
PstI  (4617)
1 site
C T G C A G G A C G T C
PsiI  (4571)
1 site
T T A T A A A A T A T T
PaeR7I  (4539)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
XhoI  (4539)
1 site
C T C G A G G A G C T C
BamHI  (4513)
1 site
G G A T C C C C T A G G

After cleavage, BamHI-HF™ (but not the original BamHI) can
remain bound to DNA and alter its electrophoretic mobility.
BmtI  (4055)
1 site
G C T A G C C G A T C G
NheI  (4051)
1 site
G C T A G C C G A T C G
EagI  (370)
1 site
C G G C C G G C C G G C
NotI  (370)
1 site
G C G G C C G C C G C C G G C G
SacII  (370)
1 site
C C G C G G G G C G C C

Efficient cleavage requires at least two copies of the SacII
recognition sequence.
BstZ17I  (623)
1 site
G T A T A C C A T A T G
BmgBI  (628)
1 site
C A C G T C G T G C A G

This recognition sequence is asymmetric, so ligating blunt ends
generated by BmgBI will not always regenerate a BmgBI site.
MscI  (679)
1 site
T G G C C A A C C G G T
Bsu36I  (859)
1 site
C C T N A G G G G A N T C C

Sticky ends from different Bsu36I sites may not be compatible.
BstEII  (1123)
1 site
G G T N A C C C C A N T G G

Sticky ends from different BstEII sites may not be compatible.
BstEII is typically used at 60°C, but is 50% active at 37°C.
StuI  (1148)
1 site
A G G C C T T C C G G A
BsiWI  (1217)
1 site
C G T A C G G C A T G C

BsiWI is typically used at 55°C, but is 50% active at 37°C.
KasI  (1350)
1 site
G G C G C C C C G C G G
NarI  (1351)
1 site
G G C G C C C C G C G G

Efficient cleavage requires at least two copies of the NarI
recognition sequence.
SfoI  (1352)
1 site
G G C G C C C C G C G G
PluTI  (1354)
1 site
G G C G C C C C G C G G

Efficient cleavage requires at least two copies of the PluTI
recognition sequence.
BfuAI  (1477)
1 site
A C C T G C ( N ) 4 T G G A C G ( N ) 4 ( N ) 4

Efficient cleavage requires at least two copies of the BfuAI
recognition sequence.
Sticky ends from different BfuAI sites may not be compatible.
BfuAI is typically used at 50°C, but is 50% active at 37°C.
BspMI  (1477)
1 site
A C C T G C ( N ) 4 T G G A C G ( N ) 4 ( N ) 4

Efficient cleavage requires at least two copies of the BspMI
recognition sequence.
Sticky ends from different BspMI sites may not be compatible.
BsrGI  (1967)
1 site
T G T A C A A C A T G T

BsrGI is typically used at 37°C, but is even more active at 60°C.
PfoI  (2225)
1 site
T C C N G G A A G G N C C T
* Blocked by Dcm methylation.
Sticky ends from different PfoI sites may not be compatible.
EcoRV  (2250)
1 site
G A T A T C C T A T A G

EcoRV is reportedly more prone than its isoschizomer Eco32I to
delete a base after cleavage.
PshAI  (2391)
1 site
G A C N N N N G T C C T G N N N N C A G

PshAI quickly loses activity at 37°C, but can be used at 25°C for
long incubations.
FspAI  (3359)
1 site
R T G C G C A Y Y A C G C G T R
BsgI  (3727)
1 site
G T G C A G ( N ) 14 N N C A C G T C ( N ) 14

Efficient cleavage requires at least two copies of the BsgI
recognition sequence.
Sticky ends from different BsgI sites may not be compatible.
For full activity, add fresh S-adenosylmethionine (SAM).
Cas9
409 .. 4512  =  4104 bp
1368 amino acids  =  158.4 kDa
Product: Cas9 (Csn1) endonuclease from the
Streptococcus pyogenes Type II CRISPR/Cas system
generates RNA-guided double strand breaks in DNA
Cas9
409 .. 4512  =  4104 bp
1368 amino acids  =  158.4 kDa
Product: Cas9 (Csn1) endonuclease from the
Streptococcus pyogenes Type II CRISPR/Cas system
generates RNA-guided double strand breaks in DNA
AmpR
6131 .. 6991  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 2:  
   6131 .. 6922  =  792 bp
   263 amino acids  =  28.9 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
6131 .. 6991  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 1:  signal sequence  
   6923 .. 6991  =  69 bp
   23 amino acids  =  2.6 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
6131 .. 6991  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
ori
5372 .. 5960  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
ori
5372 .. 5960  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
CMV enhancer
7366 .. 131  =  380 bp
human cytomegalovirus immediate early enhancer
CMV enhancer
7366 .. 131  =  380 bp
human cytomegalovirus immediate early enhancer
bGH poly(A) signal
4675 .. 4899  =  225 bp
bovine growth hormone polyadenylation signal
bGH poly(A) signal
4675 .. 4899  =  225 bp
bovine growth hormone polyadenylation signal
CMV promoter
132 .. 335  =  204 bp
human cytomegalovirus (CMV) immediate early
promoter
CMV promoter
132 .. 335  =  204 bp
human cytomegalovirus (CMV) immediate early
promoter
AmpR promoter
6992 .. 7096  =  105 bp
AmpR promoter
6992 .. 7096  =  105 bp
3xFLAG
4546 .. 4611  =  66 bp
22 amino acids  =  2.7 kDa
Product: three tandem FLAG® epitope tags,
followed by an enterokinase cleavage site
3xFLAG
4546 .. 4611  =  66 bp
22 amino acids  =  2.7 kDa
Product: three tandem FLAG® epitope tags,
followed by an enterokinase cleavage site
SV40 NLS
4519 .. 4539  =  21 bp
7 amino acids  =  883.1 Da
Product: nuclear localization signal of SV40 large T
antigen
SV40 NLS
4519 .. 4539  =  21 bp
7 amino acids  =  883.1 Da
Product: nuclear localization signal of SV40 large T
antigen
T7 promoter
377 .. 395  =  19 bp
promoter for bacteriophage T7 RNA polymerase
T7 promoter
377 .. 395  =  19 bp
promoter for bacteriophage T7 RNA polymerase
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