pSIREN-Shuttle (linearized)

Linearized vector for expressing a small hairpin RNA (shRNA) in mammalian cells.

Sequence Author: Clontech (TaKaRa)

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No matches
<BamHI> (3140) NdeI (3075) BsaAI (3006) TatI (2995) EcoO109I (2899) BglII (2882) I-CeuI (2867) Bsu36I (2864) DraIII (2500) BsrDI (2476) PaeR7I - PspXI - XhoI (2364) BanII (2315) NruI (2309) BspDI - ClaI (2273) SmaI (2092) TspMI - XmaI (2090) EcoNI (2053) SspI (2041) BsrFI (2008) AsiSI - PvuI (1968) BsmBI - Esp3I (1946) HindIII (1844) PflMI (1706) <EcoRI> (0) PI-SceI (20) BspQI - SapI (121) AflIII - PciI (237) NspI (241) DrdI (345) BseYI (541) PspFI (545) ApaLI (551) BaeGI - Bme1580I - BsiHKAI (555) AlwNI (653) AcuI - Eco57MI (785) BstEII (1036) MslI (1178) RNAi-Ready pSIREN-Shuttle 3140 bp
End  (3140)
0 sites
NdeI  (3075)
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.
BsaAI  (3006)
1 site
Y A C G T R R T G C A Y
TatI  (2995)
1 site
W G T A C W W C A T G W
EcoO109I  (2899)
1 site
R G G N C C Y Y C C N G G R

Sticky ends from different EcoO109I sites may not be compatible.
BglII  (2882)
1 site
A G A T C T T C T A G A
I-CeuI  (2867)
1 site
T A A C T A T A A C G G T C C T A A G G T A G C G A A T T G A T A T T G C C A G G A T T C C A T C G C T

I-CeuI is a homing endonuclease that can recognize a variety of similar recognition sequences.
Bsu36I  (2864)
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.
DraIII  (2500)
1 site
C A C N N N G T G G T G N N N C A C

Sticky ends from different DraIII sites may not be compatible.
BsrDI  (2476)
1 site
G C A A T G N N C G T T A C

Sticky ends from different BsrDI sites may not be compatible.
PaeR7I  (2364)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
PspXI  (2364)
1 site
V C T C G A G B B G A G C T C V
XhoI  (2364)
1 site
C T C G A G G A G C T C
BanII  (2315)
1 site
G R G C Y C C Y C G R G

Sticky ends from different BanII sites may not be compatible.
NruI  (2309)
1 site
T C G C G A A G C G C T
BspDI  (2273)
1 site
A T C G A T T A G C T A
ClaI  (2273)
1 site
A T C G A T T A G C T A
SmaI  (2092)
1 site
C C C G G G G G G C C C

SmaI can be used at 37°C for brief incubations.
TspMI  (2090)
1 site
C C C G G G G G G C C C
XmaI  (2090)
1 site
C C C G G G G G G C C C

Cleavage may be enhanced when more than one copy of the XmaI recognition sequence is present.
EcoNI  (2053)
1 site
C C T N N N N N A G G G G A N N N N N T C C

The 1-base overhangs produced by EcoNI may be hard to ligate.
Sticky ends from different EcoNI sites may not be compatible.
SspI  (2041)
1 site
A A T A T T T T A T A A
BsrFI  (2008)
1 site
R C C G G Y Y G G C C R

Cleavage may be enhanced when more than one copy of the BsrFI recognition sequence is present.
After cleavage, BsrFI can remain bound to DNA and alter its electrophoretic mobility.
AsiSI  (1968)
1 site
G C G A T C G C C G C T A G C G
PvuI  (1968)
1 site
C G A T C G G C T A G C
BsmBI  (1946)
1 site
C G T C T C N G C A G A G N ( N ) 4

Sticky ends from different BsmBI sites may not be compatible.
BsmBI-v2 is an improved version of BsmBI.
Esp3I  (1946)
1 site
C G T C T C N G C A G A G N ( N ) 4

Sticky ends from different Esp3I sites may not be compatible.
HindIII  (1844)
1 site
A A G C T T T T C G A A
PflMI  (1706)
1 site
C C A N N N N N T G G G G T N N N N N A C C

Sticky ends from different PflMI sites may not be compatible.
Start  (0)
0 sites
PI-SceI  (20)
1 site
A T C T A T G T C G G G T G C G G A G A A A G A G G T A A T G A A A T G G T A G A T A C A G C C C A C G C C T C T T T C T C C A T T A C T T T A C C

PI-SceI  is a homing endonuclease that can recognize a variety of similar recognition sequences.
BspQI  (121)
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  (121)
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.
AflIII  (237)
1 site
A C R Y G T T G Y R C A

Sticky ends from different AflIII sites may not be compatible.
PciI  (237)
1 site
A C A T G T T G T A C A

PciI is inhibited by nonionic detergents.
NspI  (241)
1 site
R C A T G Y Y G T A C R
DrdI  (345)
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  (541)
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  (545)
1 site
C C C A G C G G G T C G
ApaLI  (551)
1 site
G T G C A C C A C G T G
BaeGI  (555)
1 site
G K G C M C C M C G K G

Sticky ends from different BaeGI sites may not be compatible.
Bme1580I  (555)
1 site
G K G C M C C M C G K G

Sticky ends from different Bme1580I sites may not be compatible.
BsiHKAI  (555)
1 site
G W G C W C C W C G W G

Sticky ends from different BsiHKAI sites may not be compatible.
AlwNI  (653)
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.
AcuI  (785)
1 site
C T G A A G ( N ) 14 N N G A C T T C ( N ) 14

Cleavage may be enhanced when more than one copy of the AcuI recognition sequence is present.
Sticky ends from different AcuI sites may not be compatible.
After cleavage, AcuI can remain bound to DNA and alter its electrophoretic mobility.
For full activity, add fresh S-adenosylmethionine (SAM).
Eco57MI  (785)
1 site
C T G R A G ( N ) 14 N N G A C Y T C ( N ) 14

Sticky ends from different Eco57MI sites may not be compatible.
After cleavage, Eco57MI can remain bound to DNA and alter its electrophoretic mobility.
For full activity, add fresh S-adenosylmethionine (SAM).
BstEII  (1036)
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.
MslI  (1178)
1 site
C A Y N N N N R T G G T R N N N N Y A C
KanR
1583 .. 2398  =  816 bp
271 amino acids  =  31.0 kDa
Product: aminoglycoside phosphotransferase
confers resistance to kanamycin
KanR
1583 .. 2398  =  816 bp
271 amino acids  =  31.0 kDa
Product: aminoglycoside phosphotransferase
confers resistance to kanamycin
ori
298 .. 886  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
ori
298 .. 886  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
U6 promoter
2897 .. 3137  =  241 bp
Truncated RNA polymerase III promoter for human U6 snRNA used in pSIREN vectors such as pSIREN-RetroQ-ZsGreen1. Expected transcription start site is 8bp downstream of this feature.
U6 promoter
2897 .. 3137  =  241 bp
Truncated RNA polymerase III promoter for human U6 snRNA used in pSIREN vectors such as pSIREN-RetroQ-ZsGreen1. Expected transcription start site is 8bp downstream of this feature.
ORF:  1136 .. 1375  =  240 bp
ORF:  79 amino acids  =  8.7 kDa
ORF:  1583 .. 2398  =  816 bp
ORF:  271 amino acids  =  31.0 kDa
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