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Plasmid Files

pDendra2-N

Vector for fusing Dendra2 to the C-terminus of a partner protein.

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pDendra2-N Sequence and MappDendra2-N.dna
Map and Sequence File   
Sequence Author:  Clontech
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 AflIII - PciI (4647) EcoO109I (3827) BsaI (3718) PfoI (3504) RsrII (3245) BsrDI (2962) PflFI - Tth111I (2847) FspI (2831) MscI (2811) BspDI * - ClaI * (2569) StuI (2550) BseRI (2547) SfiI (2504) AseI (7) NdeI (234) SnaBI (340) NheI (591) BmtI (595) AfeI (596) BglII (609) PaeR7I - XhoI (613) Eco53kI (618) SacI (620) HindIII (622) EcoRI (629) PstI (638) SalI (639) AccI (640) Acc65I (645) KpnI (649) SacII (652) PspOMI (653) ApaI (657) BamHI (660) AgeI (666) BclI * (701) EcoNI (703) AleI (871) BbsI (1102) PmlI (1134) BstXI (1236) PflMI (1263) NotI (1373) XbaI * (1383) MfeI (1479) HpaI (1492) Bts α I (1568) AflII (1611) SexAI * (2318) pDendra2-N 4705 bp
AflIII  (4647)
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  (4647)
1 site
A C A T G T T G T A C A

PciI is inhibited by nonionic detergents.
EcoO109I  (3827)
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.
BsaI  (3718)
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.
PfoI  (3504)
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.
RsrII  (3245)
1 site
C G G W C C G G C C W G G C

Efficient cleavage requires at least two copies of the RsrII
recognition sequence.
Sticky ends from different RsrII sites may not be compatible.
For full activity, add fresh DTT.
BsrDI  (2962)
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.
PflFI  (2847)
1 site
G A C N N N G T C C T G N N N C A G

The 1-base overhangs produced by PflFI may be hard to ligate.
Sticky ends from different PflFI sites may not be compatible.
Tth111I  (2847)
1 site
G A C N N N G T C C T G N N N C A G

The 1-base overhangs produced by Tth111I may be hard to ligate.
Sticky ends from different Tth111I sites may not be compatible.
FspI  (2831)
1 site
T G C G C A A C G C G T
MscI  (2811)
1 site
T G G C C A A C C G G T
BspDI  (2569)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
ClaI  (2569)
1 site
A T C G A T T A G C T A
* Blocked by Dam methylation.
StuI  (2550)
1 site
A G G C C T T C C G G A
BseRI  (2547)
1 site
G A G G A G ( N ) 8 N N C T C C T C ( N ) 8

Sticky ends from different BseRI sites may not be compatible.
BseRI quickly loses activity at 37°C.
Prolonged incubation with BseRI may lead to degradation of the
DNA.
SfiI  (2504)
1 site
G G C C N N N N N G G C C C C G G N N N N N C C G G

Efficient cleavage requires at least two copies of the SfiI
recognition sequence.
Sticky ends from different SfiI sites may not be compatible.
AseI  (7)
1 site
A T T A A T T A A T T A
NdeI  (234)
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.
SnaBI  (340)
1 site
T A C G T A A T G C A T
NheI  (591)
1 site
G C T A G C C G A T C G
BmtI  (595)
1 site
G C T A G C C G A T C G
AfeI  (596)
1 site
A G C G C T T C G C G A
BglII  (609)
1 site
A G A T C T T C T A G A
PaeR7I  (613)
1 site
C T C G A G G A G C T C

PaeR7I does not recognize the sequence CTCTCGAG.
XhoI  (613)
1 site
C T C G A G G A G C T C
Eco53kI  (618)
1 site
G A G C T C C T C G A G
SacI  (620)
1 site
G A G C T C C T C G A G
HindIII  (622)
1 site
A A G C T T T T C G A A
EcoRI  (629)
1 site
G A A T T C C T T A A G
PstI  (638)
1 site
C T G C A G G A C G T C
SalI  (639)
1 site
G T C G A C C A G C T G
AccI  (640)
1 site
G T M K A C C A K M T G

Efficient cleavage with AccI requires ≥13 bp on each side of the
recognition sequence.
Sticky ends from different AccI sites may not be compatible.
Acc65I  (645)
1 site
G G T A C C C C A T G G
KpnI  (649)
1 site
G G T A C C C C A T G G
SacII  (652)
1 site
C C G C G G G G C G C C

Efficient cleavage requires at least two copies of the SacII
recognition sequence.
PspOMI  (653)
1 site
G G G C C C C C C G G G
ApaI  (657)
1 site
G G G C C C C C C G G G

ApaI can be used between 25°C and 37°C.
BamHI  (660)
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.
AgeI  (666)
1 site
A C C G G T T G G C C A

AgeI quickly loses activity at 37°C, but can be used at 25°C for
long incubations.
BclI  (701)
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.
EcoNI  (703)
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.
AleI  (871)
1 site
C A C N N N N G T G G T G N N N N C A C
BbsI  (1102)
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.
PmlI  (1134)
1 site
C A C G T G G T G C A C

PmlI gradually loses activity when stored at -20°C.
BstXI  (1236)
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.
PflMI  (1263)
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.
NotI  (1373)
1 site
G C G G C C G C C G C C G G C G
XbaI  (1383)
1 site
T C T A G A A G A T C T
* Blocked by Dam methylation.
MfeI  (1479)
1 site
C A A T T G G T T A A C
HpaI  (1492)
1 site
G T T A A C C A A T T G
BtsαI  (1568)
1 site
G C A G T G N N C G T C A C

Sticky ends from different BtsI sites may not be compatible.
AflII  (1611)
1 site
C T T A A G G A A T T C

The sticky ends produced by AflII are hard to ligate.
SexAI  (2318)
1 site
A C C W G G T T G G W C C A
* Blocked by Dcm methylation.
Sticky ends from different SexAI sites may not be compatible.
NeoR/KanR
2601 .. 3395  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from
Tn5
confers resistance to neomycin, kanamycin, and
G418 (Geneticin)
NeoR/KanR
2601 .. 3395  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from
Tn5
confers resistance to neomycin, kanamycin, and
G418 (Geneticin)
Dendra2
679 .. 1371  =  693 bp
230 amino acids  =  26.1 kDa
Product: monomeric photoswitchable green-to-red
fluorescent protein from Dendronephthya
mammalian codon-optimized
Dendra2
679 .. 1371  =  693 bp
230 amino acids  =  26.1 kDa
Product: monomeric photoswitchable green-to-red
fluorescent protein from Dendronephthya
mammalian codon-optimized
ori
4003 .. 4591  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
ori
4003 .. 4591  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
f1 ori
1621 .. 2076  =  456 bp
f1 bacteriophage origin of replication; arrow
indicates direction of (+) strand synthesis
f1 ori
1621 .. 2076  =  456 bp
f1 bacteriophage origin of replication; arrow
indicates direction of (+) strand synthesis
SV40 promoter
2209 .. 2566  =  358 bp
SV40 enhancer and early promoter
SV40 promoter
2209 .. 2566  =  358 bp
SV40 enhancer and early promoter
CMV enhancer
61 .. 364  =  304 bp
human cytomegalovirus immediate early enhancer
CMV enhancer
61 .. 364  =  304 bp
human cytomegalovirus immediate early enhancer
CMV promoter
365 .. 568  =  204 bp
human cytomegalovirus (CMV) immediate early
promoter
CMV promoter
365 .. 568  =  204 bp
human cytomegalovirus (CMV) immediate early
promoter
SV40 poly(A) signal
1493 .. 1614  =  122 bp
SV40 polyadenylation signal
SV40 poly(A) signal
1493 .. 1614  =  122 bp
SV40 polyadenylation signal
AmpR promoter
2103 .. 2207  =  105 bp
AmpR promoter
2103 .. 2207  =  105 bp
MCS
591 .. 671  =  81 bp
multiple cloning site of fluorescent protein plasmids
MCS
591 .. 671  =  81 bp
multiple cloning site of fluorescent protein plasmids
HSV TK poly(A) signal
3627 .. 3674  =  48 bp
herpesvirus thymidine kinase polyadenylation signal
HSV TK poly(A) signal
3627 .. 3674  =  48 bp
herpesvirus thymidine kinase polyadenylation signal
SV40 ori
2417 .. 2552  =  136 bp
SV40 origin of replication
SV40 ori
2417 .. 2552  =  136 bp
SV40 origin of replication
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