Resources
Plasmid Files

pEX-A

Streamlined bacterial cloning vector with an ampicillin resistance marker.

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

pEX-A.dna
Map and Sequence File:    Download    Open   
Sequence Author:  Eurofins Genomics
Download Free Trial Get SnapGene Viewer

 NotI (2440) BanII - SacI (2437) Eco53kI (2435) KpnI (2431) Acc65I (2427) NdeI (2422) pEX-For (2323 .. 2343) PfoI (2284) EcoO109I (2227) AatII (2173) ZraI (2171) SspI (2055) XmnI (1850) ScaI (1731) TsoI (1650) PvuI (1621) FspI (1473) NmeAIII (1399) BglI (1371) BsrFI (1331) BpmI (1321) BsaI (1312) BmrI (1291) NotI (6) AarI - BfuAI - BspMI (10) HindIII (13) BamHI (19) ApoI - EcoRI (25) pEX-Rev (75 .. 100) PvuII (182) BspQI - SapI (242) AflIII - PciI (358) BseYI (662) PspFI (666) AlwNI (774) AhdI (1251) pEX-A 2450 bp
NotI  (2440)
2 sites
G C G G C C G C C G C C G G C G
BanII  (2437)
1 site
G R G C Y C C Y C G R G

Sticky ends from different BanII sites may not be compatible.
SacI  (2437)
1 site
G A G C T C C T C G A G
Eco53kI  (2435)
1 site
G A G C T C C T C G A G
KpnI  (2431)
1 site
G G T A C C C C A T G G
Acc65I  (2427)
1 site
G G T A C C C C A T G G
NdeI  (2422)
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.
PfoI  (2284)
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.
EcoO109I  (2227)
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.
AatII  (2173)
1 site
G A C G T C C T G C A G
ZraI  (2171)
1 site
G A C G T C C T G C A G
SspI  (2055)
1 site
A A T A T T T T A T A A
XmnI  (1850)
1 site
G A A N N N N T T C C T T N N N N A A G
ScaI  (1731)
1 site
A G T A C T T C A T G A
TsoI  (1650)
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).
PvuI  (1621)
1 site
C G A T C G G C T A G C
FspI  (1473)
1 site
T G C G C A A C G C G T
NmeAIII  (1399)
1 site
G C C G A G ( N ) 18-19 N N C G G C T C ( N ) 18-19

Efficient cleavage requires at least two copies of the NmeAIII
recognition sequence.
Sticky ends from different NmeAIII sites may not be compatible.
For full activity, add fresh S-adenosylmethionine (SAM).
BglI  (1371)
1 site
G C C N N N N N G G C C G G N N N N N C C G

Sticky ends from different BglI sites may not be compatible.
BsrFI  (1331)
1 site
R C C G G Y Y G G C C R

Efficient cleavage requires at least two copies of the BsrFI
recognition sequence.
After cleavage, BsrFI can remain bound to DNA and alter its
electrophoretic mobility.
BpmI  (1321)
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.
BsaI  (1312)
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.
BmrI  (1291)
1 site
A C T G G G ( N ) 4 N T G A C C C ( N ) 4

The 1-base overhangs produced by BmrI may be hard to ligate.
Sticky ends from different BmrI sites may not be compatible.
Unlike most restriction enzymes, BmrI can cleave DNA in the
absence of magnesium.
NotI  (6)
2 sites
G C G G C C G C C G C C G G C G
AarI  (10)
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.
BfuAI  (10)
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  (10)
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.
HindIII  (13)
1 site
A A G C T T T T C G A A
BamHI  (19)
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.
ApoI  (25)
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  (25)
1 site
G A A T T C C T T A A G
PvuII  (182)
1 site
C A G C T G G T C G A C
BspQI  (242)
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  (242)
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  (358)
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  (358)
1 site
A C A T G T T G T A C A

PciI is inhibited by nonionic detergents.
BseYI  (662)
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  (666)
1 site
C C C A G C G G G T C G
AlwNI  (774)
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.
AhdI  (1251)
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.
pEX-For
21-mer  /  67% GC
1 binding site
2323 .. 2343  =  21 annealed bases
Tm  =  63°C
forward sequencing primer
pEX-Rev
26-mer  /  50% GC
1 binding site
75 .. 100  =  26 annealed bases
Tm  =  62°C
reverse sequencing primer
AmpR
1178 .. 2038  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 2:  
   1178 .. 1969  =  792 bp
   263 amino acids  =  28.9 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
1178 .. 2038  =  861 bp
286 amino acids  =  31.6 kDa
   Segment 1:  signal sequence  
   1970 .. 2038  =  69 bp
   23 amino acids  =  2.6 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
AmpR
1178 .. 2038  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and
related antibiotics
ori
419 .. 1007  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
ori
419 .. 1007  =  589 bp
high-copy-number ColE1/pMB1/pBR322/pUC origin
of replication
AmpR promoter
2039 .. 2143  =  105 bp
AmpR promoter
2039 .. 2143  =  105 bp
MCS
2421 .. 30  =  60 bp
multiple cloning site
MCS
2421 .. 30  =  60 bp
multiple cloning site
lac promoter
65 .. 95  =  31 bp
   Segment 3:  -10  
   65 .. 71  =  7 bp
promoter for the E. coli lac operon
lac promoter
65 .. 95  =  31 bp
   Segment 2:  
   72 .. 89  =  18 bp
promoter for the E. coli lac operon
lac promoter
65 .. 95  =  31 bp
   Segment 1:  -35  
   90 .. 95  =  6 bp
promoter for the E. coli lac operon
lac promoter
65 .. 95  =  31 bp
3 segments
promoter for the E. coli lac operon
lac operator
41 .. 57  =  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
41 .. 57  =  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).
Try SnapGene and create your own beautiful maps

Individual Sequences & Maps

SnapGene offers the fastest and easiest way to plan, visualize, and document your molecular biology procedures.

Priced accessibly so that everyone in your lab can have a license.

Learn More...

SnapGene Viewer is a versatile tool for creating and sharing richly annotated sequence files. It opens many common file formats.

Free! Because there should be no barriers to seeing your data.

Learn More...

The map, notes, and annotations on this page and in the sequence/map file are copyrighted material. This material may be used without restriction by academic, nonprofit, and governmental entities, except that the source must be cited as "www.snapgene.com/resources". Commercial entities must contact GSL Biotech LLC for permission and terms of use.

Copyright © 2017 GSL Biotech LLC | Site Map | Privacy | Legal Disclaimers   Subscribe to Our Newsletter