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Plasmid Files

pSIREN-RetroQ-ZsGreen1

Linearized retroviral vector for inserting an shRNA cassette that will be co-expressed with ZsGreen1.

To see this sequence with restriction sites, features, and translations, please download
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pSIREN-RetroQ-ZsGreen1.dna
Map and Sequence File:    Download    Open   
Sequence Author:  Clontech (TaKaRa)
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< BamHI > (6562) U6 forward sequencing primer (6486 .. 6509) BglII (6303) Bpu10I (6182) BstEII (5979) ApoI (5764) EagI (5616) PshAI (5403) AscI (5269) SspI (4382) XmnI (4177) ScaI (4058) PvuI (3948) FspI (3800) < EcoRI > (0) AgeI (605) BclI * (700) SgrAI (705) NgoMIV (882) NaeI (884) BmgBI (1109) BfuAI - BspMI (1129) PaeR7I - XhoI (1314) EcoRV (1321) PvuII (1364) SfiI (2391) StuI (2437) AvrII (2438) HindIII (2454) BspQI - SapI (2569) AflIII - PciI (2685) AlwNI (3101) pSIREN-RetroQ-ZsGreen1 6562 bp
End  (6562)
0 sites
BglII  (6303)
1 site
A G A T C T T C T A G A
Bpu10I  (6182)
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.
BstEII  (5979)
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.
ApoI  (5764)
1 site
R A A T T Y Y T T A A R

ApoI is typically used at 50°C, but is 50% active at 37°C.
EagI  (5616)
1 site
C G G C C G G C C G G C
PshAI  (5403)
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.
AscI  (5269)
1 site
G G C G C G C C C C G C G C G G
SspI  (4382)
1 site
A A T A T T T T A T A A
XmnI  (4177)
1 site
G A A N N N N T T C C T T N N N N A A G
ScaI  (4058)
1 site
A G T A C T T C A T G A
PvuI  (3948)
1 site
C G A T C G G C T A G C
FspI  (3800)
1 site
T G C G C A A C G C G T
Start  (0)
0 sites
AgeI  (605)
1 site
A C C G G T T G G C C A
BclI  (700)
1 site
T G A T C A A C T A G T
* Blocked by Dam methylation.
BclI is typically used at 50-55°C, but is 50% active at 37°C.
SgrAI  (705)
1 site
C R C C G G Y G G Y G G C C R C

Efficient cleavage requires at least two copies of the SgrAI recognition sequence.
NgoMIV  (882)
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  (884)
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.
BmgBI  (1109)
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.
BfuAI  (1129)
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  (1129)
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.
PaeR7I  (1314)
1 site