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Plasmid Files

pSF-Core

Promoterless backbone SnapFast™ cloning vector, on which all of the other plasmids from Oxford Genetics are based.

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pSF-Core Sequence and MappSF-Core.dna
Map and Sequence File   
Sequence Author:  Oxford Genetics
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 PmeI (3615) AhdI (3378) BmrI (3338) BsaI (3312) BpmI (3309) NmeAIII (3231) BsaHI (2838) PmeI (2494) TatI (2456) PpuMI - SanDI (2428) AscI - BssHII (2337) FseI (2191) NaeI (2189) NgoMIV (2187) SwaI (2085) BspHI (1916) AsiSI - PvuI (5) BglII (232) EagI - NotI (274) HindIII (285) Eco53kI (295) BanII - SacI (297) EcoRI (301) KpnI (317) NcoI (321) KpnI (331) EcoRV (337) AbsI - PaeR7I - PspXI - XhoI (344) XbaI (353) BseRI - BsgI (356) BspDI - ClaI (393) BamHI (402) StuI (412) NheI (418) BmtI (422) AanI - AanI - PsiI (568) HpaI (588) MfeI (597) T7 terminator PstI - SbfI (934) PacI (1066) SwaI (1192) DrdI (1304) BseYI (1500) PspFI (1504) ApaLI (1510) AlwNI (1612) pSF-Core 3734 bp
PmeI  (3615)
2 sites
G T T T A A A C C A A A T T T G
AhdI  (3378)
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.
BmrI  (3338)
1 site
A C T G G G ( N ) 4 N T G A C C C ( N ) 4

The 1-base overhangs produced by BmrI may be hard to ligate.
Sticky ends from different BmrI sites may not be compatible.
Unlike most restriction enzymes, BmrI can cleave DNA in the
absence of magnesium.
BsaI  (3312)
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.
BpmI  (3309)
1 site
C T G G A G ( N ) 14 N N G A C C T C ( N ) 14

Efficient cleavage requires at least two copies of the BpmI
recognition sequence.
Sticky ends from different BpmI sites may not be compatible.
After cleavage, BpmI can remain bound to DNA and alter its
electrophoretic mobility.
BpmI quickly loses activity at 37°C.
NmeAIII  (3231)
1 site
G C C G A G ( N ) 18-19 N N C G G C T C ( N ) 18-19

Efficient cleavage requires at least two copies of the NmeAIII
recognition sequence.
Sticky ends from different NmeAIII sites may not be compatible.
For full activity, add fresh S-adenosylmethionine (SAM).
BsaHI  (2838)
1 site
G R C G Y C C Y G C R G

BsaHI is typically used at 37°C, but is even more active at 60°C.
PmeI  (2494)
2 sites
G T T T A A A C C A A A T T T G
TatI  (2456)
1 site
W G T A C W W C A T G W
PpuMI  (2428)
1 site
R G G W C C Y Y C C W G G R

Sticky ends from different PpuMI sites may not be compatible.
SanDI  (2428)
1 site
G G G W C C C C C C W G G G

Sticky ends from different SanDI sites may not be compatible.
AscI  (2337)
1 site
G G C G C G C C C C G C G C G G
BssHII  (2337)
1 site
G C G C G C C G C G C G

BssHII is typically used at 50°C, but is 75% active at 37°C.
FseI  (2191)
1 site
G G C C G G C C C C G G C C G G

FseI gradually loses activity when stored at -20°C.
NaeI  (2189)
1 site
G C C G G C C G G C C G

Efficient cleavage requires at least two copies of the NaeI
recognition sequence.
NgoMIV  (2187)
1 site
G C C G G C C G G C C G

Efficient cleavage requires at least two copies of the NgoMIV
recognition sequence.
SwaI  (2085)
2 sites
A T T T A A A T T A A A T T T A

SwaI is typically used at 25°C, but is 50% active at 37°C.
BspHI  (1916)
1 site
T C A T G A A G T A C T
AsiSI  (5)
1 site
G C G A T C G C C G C T A G C G
PvuI  (5)
1 site
C G A T C G G C T A G C
BglII  (232)
1 site
A G A T C T T C T A G A
EagI  (274)
1 site
C G G C C G G C C G G C
NotI  (274)
1 site
G C G G C C G C C G C C G G C G
HindIII  (285)
1 site
A A G C T T T T C G A A
Eco53kI  (295)
1 site
G A G C T C C T C G A G
BanII  (297)
1 site
G R G C Y C C Y C G R G

Sticky ends from different BanII sites may not be compatible.
SacI  (297)
1 site
G A G C T C C T C G A G
EcoRI  (301)
1 site
G A A T T C C T T A A G
KpnI  (317)
2 sites
G G T A C C C C A T G G
NcoI  (321)
1 site
C C A T G G G G T A C C
KpnI  (331)
2 sites
G G T A C C C C A T G G
EcoRV  (337)
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.
AbsI  (344)
1 site
C C T C G A G G G G A G C T C C
PaeR7I  (344)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
PspXI  (344)
1 site
V C T C G A G B B G A G C T C V
XhoI  (344)
1 site
C T C G A G G A G C T C
XbaI  (353)
1 site
T C T A G A A G A T C T
BseRI  (356)
1 site
G A G G A G ( N ) 8 N N C T C C T C ( N ) 8

Sticky ends from different BseRI sites may not be compatible.
BseRI quickly loses activity at 37°C.
Prolonged incubation with BseRI may lead to degradation of the
DNA.
BsgI  (356)
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).
BspDI  (393)
1 site
A T C G A T T A G C T A
ClaI  (393)
1 site
A T C G A T T A G C T A
BamHI  (402)
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.
StuI  (412)
1 site
A G G C C T T C C G G A
NheI  (418)
1 site
G C T A G C C G A T C G
BmtI  (422)
1 site
G C T A G C C G A T C G
AanI  (568)
1 site
T T A T A A A A T A T T
AanI  (568)
1 site
T T A T A A A A T A T T
PsiI  (568)
1 site
T T A T A A A A T A T T
HpaI  (588)
1 site
G T T A A C C A A T T G
MfeI  (597)
1 site
C A A T T G G T T A A C
PstI  (934)
1 site
C T G C A G G A C G T C
SbfI  (934)
1 site
C C T G C A G G G G A C G T C C
PacI  (1066)
1 site
T T A A T T A A A A T T A A T T
SwaI  (1192)
2 sites
A T T T A A A T T A A A T T T A

SwaI is typically used at 25°C, but is 50% active at 37°C.
DrdI  (1304)
1 site
G A C N N N N N N G T C C T G N N N N N N C A G

Sticky ends from different DrdI sites may not be compatible.
BseYI  (1500)
1 site
C C C A G C G G G T C G

After cleavage, BseYI can remain bound to DNA and alter its
electrophoretic mobility.
PspFI  (1504)
1 site
C C C A G C G G G T C G
ApaLI  (1510)
1 site
G T G C A C C A C G T G
AlwNI  (1612)
1 site
C A G N N N C T G G T C N N N G A C

Sticky ends from different AlwNI sites may not be compatible.
AmpR
2591 .. 3451  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 1:  signal sequence  
   2591 .. 2659  =  69 bp
   23 amino acids  =  2.6 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
2591 .. 3451  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 2:  
   2660 .. 3451  =  792 bp
   263 amino acids  =  28.9 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
2591 .. 3451  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
ori
1257 .. 1845  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
ori
1257 .. 1845  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
rrnG terminator
779 .. 915  =  137 bp
transcription terminator from the E. coli ribosomal
RNA rrnG operon (Albrechtsen et al., 1991)
rrnG terminator
779 .. 915  =  137 bp
transcription terminator from the E. coli ribosomal
RNA rrnG operon (Albrechtsen et al., 1991)
rrnG terminator
3464 .. 3600  =  137 bp
transcription terminator from the E. coli ribosomal
RNA rrnG operon (Albrechtsen et al., 1991)
rrnG terminator
3464 .. 3600  =  137 bp
transcription terminator from the E. coli ribosomal
RNA rrnG operon (Albrechtsen et al., 1991)
SV40 poly(A) signal
467 .. 588  =  122 bp
SV40 polyadenylation signal
SV40 poly(A) signal
467 .. 588  =  122 bp
SV40 polyadenylation signal
MCS
273 .. 358  =  86 bp
multiple cloning site
MCS
273 .. 358  =  86 bp
multiple cloning site
5' β-globin insulator
18 .. 89  =  72 bp
insulator upstream of the human β-globin locus
(Farrell et al., 2002)
5' β-globin insulator
18 .. 89  =  72 bp
insulator upstream of the human β-globin locus
(Farrell et al., 2002)
3' β-globin insulator
960 .. 1031  =  72 bp
insulator downstream of the human β-globin locus
(Farrell et al., 2002)
3' β-globin insulator
960 .. 1031  =  72 bp
insulator downstream of the human β-globin locus
(Farrell et al., 2002)
T7 terminator
703 .. 749  =  47 bp
transcription terminator for bacteriophage T7 RNA
polymerase
T7 terminator
703 .. 749  =  47 bp
transcription terminator for bacteriophage T7 RNA
polymerase
stop codons
377 .. 387  =  11 bp
stop codons in all three reading frames
stop codons
377 .. 387  =  11 bp
stop codons in all three reading frames
stop codons
425 .. 435  =  11 bp
stop codons in all three reading frames
stop codons
425 .. 435  =  11 bp
stop codons in all three reading frames
RBS
2578 .. 2583  =  6 bp
Shine-Dalgarno ribosome binding site
RBS
2578 .. 2583  =  6 bp
Shine-Dalgarno ribosome binding site
Kozak sequence
319 .. 325  =  7 bp
Kozak sequence
319 .. 325  =  7 bp
RBS
309 .. 314  =  6 bp
Shine-Dalgarno ribosome binding site
RBS
309 .. 314  =  6 bp
Shine-Dalgarno ribosome binding site
ATG
323 .. 325  =  3 bp
1 amino acid  =  149.2 Da
Product: start codon
ATG
323 .. 325  =  3 bp
1 amino acid  =  149.2 Da
Product: start codon
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