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Plasmid Files

pDsRed-Express2

Vector for expressing rapidly maturing and noncytotoxic DsRed-Express2 in bacteria.

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pDsRed-Express2 Sequence and MappDsRed-Express2.dna
Map and Sequence File   
Sequence Author:  Clontech
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 BspQI - SapI (3303) AflIII - PciI (3186) AlwNI (2777) BsaI (2232) BpmI (2229) FspI (2075) PvuI (1929) TsoI (1900) ScaI (1817) XmnI (1698) PvuII (55) HindIII (234) SphI (244) SalI (252) AccI (253) HincII (254) BamHI (264) TspMI - XmaI (269) SmaI (271) Acc65I (273) AgeI (276) KpnI (277) NcoI (287) AarI (417) BseRI (609) PmlI (651) BbsI (709) SexAI * (806) PflMI * (807) MscI (835) AleI (916) BssHII (933) NotI (967) ApoI - EcoRI (981) StuI (1041) SpeI (1045) BsiWI (1055) PspOMI (1060) ApaI (1064) PfoI (1118) NdeI (1256) BstAPI (1257) AflII (1313) ZraI (1377) AatII (1379) SspI (1493) pDsRed-Express2 3311 bp
BspQI  (3303)
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  (3303)
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  (3186)
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  (3186)
1 site
A C A T G T T G T A C A

PciI is inhibited by nonionic detergents.
AlwNI  (2777)
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.
BsaI  (2232)
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.
BpmI  (2229)
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.
FspI  (2075)
1 site
T G C G C A A C G C G T
PvuI  (1929)
1 site
C G A T C G G C T A G C
TsoI  (1900)
1 site
T A R C C A ( N ) 9 N N A T Y G G T ( N ) 9

Sticky ends from different TsoI sites may not be compatible.
After cleavage, TsoI can remain bound to DNA and alter its
electrophoretic mobility.
For full activity, add fresh S-adenosylmethionine (SAM).
ScaI  (1817)
1 site
A G T A C T T C A T G A
XmnI  (1698)
1 site
G A A N N N N T T C C T T N N N N A A G
PvuII  (55)
1 site
C A G C T G G T C G A C
HindIII  (234)
1 site
A A G C T T T T C G A A
SphI  (244)
1 site
G C A T G C C G T A C G
SalI  (252)
1 site
G T C G A C C A G C T G
AccI  (253)
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.
HincII  (254)
1 site
G T Y R A C C A R Y T G
BamHI  (264)
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.
TspMI  (269)
1 site
C C C G G G G G G C C C
XmaI  (269)
1 site
C C C G G G G G G C C C

Efficient cleavage requires at least two copies of the XmaI
recognition sequence.
Full cleavage with XmaI may require a long incubation.
SmaI  (271)
1 site
C C C G G G G G G C C C

SmaI can be used at 37°C for brief incubations.
Acc65I  (273)
1 site
G G T A C C C C A T G G
AgeI  (276)
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.
KpnI  (277)
1 site
G G T A C C C C A T G G
NcoI  (287)
1 site
C C A T G G G G T A C C
AarI  (417)
1 site
C A C C T G C ( N ) 4 G T G G A C G ( N ) 4 ( N ) 4

Efficient cleavage requires at least two copies of the AarI
recognition sequence.
Sticky ends from different AarI sites may not be compatible.
After cleavage, AarI can remain bound to DNA and alter its
electrophoretic mobility.
BseRI  (609)
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.
PmlI  (651)
1 site
C A C G T G G T G C A C

PmlI gradually loses activity when stored at -20°C.
BbsI  (709)
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.
SexAI  (806)
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.
PflMI  (807)
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.
MscI  (835)
1 site
T G G C C A A C C G G T
AleI  (916)
1 site
C A C N N N N G T G G T G N N N N C A C
BssHII  (933)
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.
NotI  (967)
1 site
G C G G C C G C C G C C G G C G
ApoI  (981)
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.
EcoRI  (981)
1 site
G A A T T C C T T A A G
StuI  (1041)
1 site
A G G C C T T C C G G A
SpeI  (1045)
1 site
A C T A G T T G A T C A
BsiWI  (1055)
1 site
C G T A C G G C A T G C

BsiWI is typically used at 55°C, but is 50% active at 37°C.
PspOMI  (1060)
1 site
G G G C C C C C C G G G
ApaI  (1064)
1 site
G G G C C C C C C G G G

ApaI can be used between 25°C and 37°C.
PfoI  (1118)
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.
NdeI  (1256)
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.
BstAPI  (1257)
1 site
G C A N N N N N T G C C G T N N N N N A C G

Sticky ends from different BstAPI sites may not be compatible.
AflII  (1313)
1 site
C T T A A G G A A T T C

The sticky ends produced by AflII are hard to ligate.
ZraI  (1377)
1 site
G A C G T C C T G C A G
AatII  (1379)
1 site
G A C G T C C T G C A G
SspI  (1493)
1 site
A A T A T T T T A T A A
AmpR
1511 .. 2371  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 1:  signal sequence  
   1511 .. 1579  =  69 bp
   23 amino acids  =  2.6 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
1511 .. 2371  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 2:  
   1580 .. 2371  =  792 bp
   263 amino acids  =  28.9 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
1511 .. 2371  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
DsRed-Express2
289 .. 966  =  678 bp
225 amino acids  =  25.7 kDa
Product: noncytotoxic tetrameric variant of DsRed
fluorescent protein
mammalian codon-optimized
DsRed-Express2
289 .. 966  =  678 bp
225 amino acids  =  25.7 kDa
Product: noncytotoxic tetrameric variant of DsRed
fluorescent protein
mammalian codon-optimized
ori
2542 .. 3130  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
ori
2542 .. 3130  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
AmpR promoter
1406 .. 1510  =  105 bp
AmpR promoter
1406 .. 1510  =  105 bp
lac promoter
143 .. 173  =  31 bp
   Segment 1:  -35  
   143 .. 148  =  6 bp
promoter for the E. coli lac operon
lac promoter
143 .. 173  =  31 bp
   Segment 2:  
   149 .. 166  =  18 bp
promoter for the E. coli lac operon
lac promoter
143 .. 173  =  31 bp
   Segment 3:  -10  
   167 .. 173  =  7 bp
promoter for the E. coli lac operon
lac promoter
143 .. 173  =  31 bp
3 segments
promoter for the E. coli lac operon
lac operator
181 .. 197  =  17 bp
The lac repressor binds to the lac operator to inhibit
transcription in E. coli. This inhibition can be
relieved by adding lactose or
isopropyl-β-D-thiogalactopyranoside (IPTG).
lac operator
181 .. 197  =  17 bp
The lac repressor binds to the lac operator to inhibit
transcription in E. coli. This inhibition can be
relieved by adding lactose or
isopropyl-β-D-thiogalactopyranoside (IPTG).
M13 rev
205 .. 221  =  17 bp
common sequencing primer, one of multiple similar
variants
M13 rev
205 .. 221  =  17 bp
common sequencing primer, one of multiple similar
variants
ATG
217 .. 219  =  3 bp
1 amino acid  =  149.2 Da
Product: start codon
ATG
217 .. 219  =  3 bp
1 amino acid  =  149.2 Da
Product: start codon
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