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Plasmid Files

pRS406

Yeast integrative vector with a URA3 marker and an MCS derived from pBLUESCRIPT II.

 
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pRS406.dna
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AatII (4319) ZraI (4317) XmnI (3996) NmeAIII (3545) AhdI (3397) PfoI (46) NdeI (330) BsgI (363) SbfI (399) BfuAI - BspMI (402) XcmI (545) PpuMI (570) NcoI (622) BstBI (682) BbsI (691) BsmI (779) StuI (853) Bpu10I (1147) NsiI (1244) BsaAI (1575) BtgZI (1576) NgoMIV (1676) NaeI (1678) Acc65I (2004) KpnI (2008) AbsI - PaeR7I - PspXI - XhoI (2019) SalI (2025) BspDI - ClaI (2035) HindIII (2040) EcoRI (2052) TspMI - XmaI (2064) SmaI (2066) BamHI (2070) SpeI (2076) XbaI (2082) EagI - NotI (2089) AleI (2100) SacII (2101) BstXI (2102) Eco53kI (2108) SacI (2110) pRS406 4384 bp
AatII  (4319)
1 site
G A C G T C C T G C A G
ZraI  (4317)
1 site
G A C G T C C T G C A G
XmnI  (3996)
1 site
G A A N N N N T T C C T T N N N N A A G
NmeAIII  (3545)
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).
AhdI  (3397)
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.
PfoI  (46)
1 site
T C C N G G A A G G N C C T

Sticky ends from different PfoI sites may not be compatible.
NdeI  (330)
1 site
C A T A T G G T A T A C

Prolonged incubation with NdeI may lead to removal of additional nucleotides.
BsgI  (363)
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).
SbfI  (399)
1 site
C C T G C A G G G G A C G T C C
BfuAI  (402)
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  (402)
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.
XcmI  (545)
1 site
C C A N N N N N N N N N T G G G G T N N N N N N N N N A C C

The 1-base overhangs produced by XcmI may be hard to ligate.
Sticky ends from different XcmI sites may not be compatible.
PpuMI  (570)
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.
NcoI  (622)
1 site
C C A T G G G G T A C C
BstBI  (682)
1 site
T T C G A A A A G C T T
BbsI  (691)
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.
BsmI  (779)
1 site
G A A T G C N C T T A C G N

Sticky ends from different BsmI sites may not be compatible.
StuI  (853)
1 site
A G G C C T T C C G G A
Bpu10I  (1147)
1 site
C C T N A G C G G A N T C G

Efficient cleavage requires at least two copies of the Bpu10I recognition sequence.
This recognition sequence is asymmetric, so ligating sticky ends generated by Bpu10I will not always regenerate a Bpu10I site.
Sticky ends from different Bpu10I sites may not be compatible.
NsiI  (1244)
1 site
A T G C A T T A C G T A
BsaAI  (1575)
1 site
Y A C G T R R T G C A Y
BtgZI  (1576)
1 site
G C G A T G ( N ) 10 C G C T A C ( N ) 10 ( N ) 4

Sticky ends from different BtgZI sites may not be compatible.
After cleavage, BtgZI can remain bound to DNA and alter its electrophoretic mobility.
BtgZI is typically used at 60°C, but is 75% active at 37°C.
NgoMIV  (1676)
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.
NaeI  (1678)
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.
Acc65I  (2004)
1 site
G G T A C C C C A T G G
KpnI  (2008)
1 site
G G T A C C C C A T G G
AbsI  (2019)
1 site
C C T C G A G G G G A G C T C C
PaeR7I  (2019)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
PspXI  (2019)
1 site
V C T C G A G B B G A G C T C V
XhoI  (2019)
1 site
C T C G A G G A G C T C
SalI  (2025)
1 site
G T C G A C C A G C T G
BspDI  (2035)
1 site
A T C G A T T A G C T A
ClaI  (2035)
1 site
A T C G A T T A G C T A
HindIII  (2040)
1 site
A A G C T T T T C G A A
EcoRI  (2052)
1 site
G A A T T C C T T A A G
TspMI  (2064)
1 site
C C C G G G G G G C C C
XmaI  (2064)
1 site
C C C G G G G G G C C C

Efficient cleavage requires at least two copies of the XmaI recognition sequence.
Full cleavage with XmaI may require a long incubation.
SmaI  (2066)
1 site
C C C G G G G G G C C C

SmaI can be used at 37°C for brief incubations.
BamHI  (2070)
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.
SpeI  (2076)
1 site
A C T A G T T G A T C A
XbaI  (2082)
1 site
T C T A G A A G A T C T
EagI  (2089)
1 site
C G G C C G G C C G G C
NotI  (2089)
1 site
G C G G C C G C C