pDONR P4-P1r

Gateway® donor vector with attP4 and attP1 (reversed) sites and a kanamycin resistance marker.

Sequence Author: Thermo Fisher (Invitrogen)

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PciI (4771) DrdI (4669) BssSI - BssSαI (4598) PspFI (4471) BseYI (4467) AcuI (4229) AsiSI - PvuI (3596) EcoNI (3508) NruI (3253) EcoRV (3014) EagI - NotI (3005) SalI (2729) BsaAI (2580) NspI (4775) BspQI - SapI (111) BsaHI (327) BbsI (437) M13 fwd AhdI (549) AflII (554) PspOMI (563) ApaI (567) XmnI (1036) BfuAI - BspMI (1154) BsaI (1260) BstXI (1289) BmgBI (1368) BsaBI * (1389) TspMI - XmaI (1400) SmaI - SrfI (1402) BbvCI (1545) BstZ17I (1738) BssHII (1775) BamHI (1816) ScaI (1856) BpmI (2153) BspEI (2273) pDONR™ P4-P1r 4777 bp
PciI  (4771)
1 site
A C A T G T T G T A C A

PciI is inhibited by nonionic detergents.
DrdI  (4669)
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.
BssSI  (4598)
1 site
C A C G A G G T G C T C
BssSαI  (4598)
1 site
C A C G A G G T G C T C
PspFI  (4471)
1 site
C C C A G C G G G T C G
BseYI  (4467)
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.
AcuI  (4229)
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).
AsiSI  (3596)
1 site
G C G A T C G C C G C T A G C G
PvuI  (3596)
1 site
C G A T C G G C T A G C
EcoNI  (3508)
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.
NruI  (3253)
1 site
T C G C G A A G C G C T
EcoRV  (3014)
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.
EagI  (3005)
1 site
C G G C C G G C C G G C
NotI  (3005)
1 site
G C G G C C G C C G C C G G C G
SalI  (2729)
1 site
G T C G A C C A G C T G
BsaAI  (2580)
1 site
Y A C G T R R T G C A Y
NspI  (4775)
1 site
R C A T G Y Y G T A C R
BspQI  (111)
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  (111)
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.
BsaHI  (327)
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.
BbsI  (437)
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.
AhdI  (549)
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.
AflII  (554)
1 site
C T T A A G G A A T T C
PspOMI  (563)
1 site
G G G C C C C C C G G G
ApaI  (567)
1 site
G G G C C C C C C G G G

ApaI can be used between 25°C and 37°C.
XmnI  (1036)
1 site
G A A N N N N T T C C T T N N N N A A G
BfuAI  (1154)
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  (1154)
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.
BsaI  (1260)
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.
BstXI  (1289)
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.
BmgBI  (1368)
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.
BsaBI  (1389)
1 site
G A T N N N N A T C C T A N N N N T A G
* Blocked by Dam methylation.
TspMI  (1400)
1 site
C C C G G G G G G C C C
XmaI  (1400)
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.
SmaI  (1402)
1 site
C C C G G G G G G C C C

SmaI can be used at 37°C for brief incubations.
SrfI  (1402)
1 site
G C C C G G G C C G G G C C C G
BbvCI  (1545)
1 site
C C T C A G C G G A G T C G
BstZ17I  (1738)
1 site
G T A T A C C A T A T G
BssHII  (1775)
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.
BamHI  (1816)
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.
ScaI  (1856)
1 site
A G T A C T T C A T G A
BpmI  (2153)
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.
BspEI  (2273)
1 site
T C C G G A A G G C C T
KanR
3171 .. 3980  =  810 bp
269 amino acids  =  30.8 kDa
Product: aminoglycoside phosphotransferase
confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes
KanR
3171 .. 3980  =  810 bp
269 amino acids  =  30.8 kDa
Product: aminoglycoside phosphotransferase
confers resistance to kanamycin in bacteria or G418 (Geneticin®) in eukaryotes
CmR
1828 .. 2487  =  660 bp
219 amino acids  =  25.7 kDa
Product: chloramphenicol acetyltransferase
confers resistance to chloramphenicol
CmR
1828 .. 2487  =  660 bp
219 amino acids  =  25.7 kDa
Product: chloramphenicol acetyltransferase
confers resistance to chloramphenicol
ori
4127 .. 4715  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
ori
4127 .. 4715  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin of replication
ccdB
1181 .. 1486  =  306 bp
101 amino acids  =  11.7 kDa
Product: CcdB, a bacterial toxin that poisons DNA gyrase
Plasmids containing the ccdB gene cannot be propagated in standard E. coli strains.
ccdB
1181 .. 1486  =  306 bp
101 amino acids  =  11.7 kDa
Product: CcdB, a bacterial toxin that poisons DNA gyrase
Plasmids containing the ccdB gene cannot be propagated in standard E. coli strains.
attP4
593 .. 824  =  232 bp
recombination site for the Gateway® BP reaction
attP4
593 .. 824  =  232 bp
recombination site for the Gateway® BP reaction
attP1
2748 .. 2979  =  232 bp
recombination site for the Gateway® BP reaction
attP1
2748 .. 2979  =  232 bp
recombination site for the Gateway® BP reaction
cat promoter
2488 .. 2590  =  103 bp
promoter of the E. coli cat gene
cat promoter
2488 .. 2590  =  103 bp
promoter of the E. coli cat gene
rrnB T1 terminator
387 .. 473  =  87 bp
transcription terminator T1 from the E. coli rrnB gene
rrnB T1 terminator
387 .. 473  =  87 bp
transcription terminator T1 from the E. coli rrnB gene
rrnB T2 terminator
268 .. 295  =  28 bp
transcription terminator T2 from the E. coli rrnB gene
rrnB T2 terminator
268 .. 295  =  28 bp
transcription terminator T2 from the E. coli rrnB gene
M13 fwd
537 .. 553  =  17 bp
common sequencing primer, one of multiple similar variants
M13 fwd
537 .. 553  =  17 bp
common sequencing primer, one of multiple similar variants
M13 rev
3042 .. 3058  =  17 bp
common sequencing primer, one of multiple similar variants
M13 rev
3042 .. 3058  =  17 bp
common sequencing primer, one of multiple similar variants
ORF:  3171 .. 3980  =  810 bp
ORF:  269 amino acids  =  30.8 kDa
ORF:  1181 .. 1486  =  306 bp
ORF:  101 amino acids  =  11.7 kDa
ORF:  1828 .. 2487  =  660 bp
ORF:  219 amino acids  =  25.7 kDa
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