Resources
Plasmid Files

pSIREN-RetroQ-DsRed-Express

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

To see this sequence with restriction sites, features, and translations, please download
 SnapGene or the free  SnapGene Viewer.

pSIREN-RetroQ-DsRed-Express.dna
Map and Sequence File:    Download    Open   
Sequence Author:  Clontech (TaKaRa)
Download Free Trial Get SnapGene Viewer


< BamHI > (6543) U6 forward sequencing primer (6468 .. 6491) BglII (6285) Bpu10I (6164) ApoI (5746) EagI (5598) PshAI (5385) AscI (5251) SspI (4364) XmnI (4159) ScaI (4040) PvuI (3930) < EcoRI > (0) AgeI (605) FspAI (666) SbfI (958) PflMI * (1136) BstXI (1160) BsgI (1197) AleI (1245) PaeR7I - XhoI (1296) EcoRV (1303) SalI (1538) AccI (1539) SfiI (2373) AvrII (2420) HindIII (2436) BspQI - SapI (2551) AflIII - PciI (2667) AlwNI (3083) pSIREN-RetroQ-DsRed-Express 6543 bp
End  (6543)
0 sites
BglII  (6285)
1 site
A G A T C T T C T A G A
Bpu10I  (6164)
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.
ApoI  (5746)
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  (5598)
1 site
C G G C C G G C C G G C
PshAI  (5385)
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  (5251)
1 site
G G C G C G C C C C G C G C G G
SspI  (4364)
1 site
A A T A T T T T A T A A
XmnI  (4159)
1 site
G A A N N N N T T C C T T N N N N A A G
ScaI  (4040)
1 site
A G T A C T T C A T G A
PvuI  (3930)
1 site
C G A T C G G C T A G C
Start  (0)
0 sites
AgeI  (605)
1 site
A C C G G T T G G C C A
FspAI  (666)
1 site
R T G C G C A Y Y A C G C G T R
SbfI  (958)
1 site
C C T G C A G G G G A C G T C C
PflMI  (1136)
1 site
C C A N N N N N T G G G G T N N N N N A C C
* Blocked by Dcm methylation.
Sticky ends from different PflMI sites may not be compatible.
BstXI  (1160)
1 site
C C A N N N N N N T G G G G T N N N N N N A C C

Sticky ends from different BstXI sites may not be compatible.
BsgI  (1197)
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).
AleI  (1245)
1 site
C A C N N N N G T G G T G N N N N C A C
PaeR7I  (1296)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
XhoI  (1296)
1 site
C T C G A G G A G C T C
EcoRV  (1303)
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.
SalI  (1538)
1 site
G T C G A