pCR4-TOPO (linearized)

Linearized vector with 3'-T overhangs and bound topoisomerase, for TOPO® TA cloning of PCR products. Can be used to generate nested deletions for sequencing.

Sequence Author: Thermo Fisher (Invitrogen)

Try SnapGene for Free
|Download SnapGene Viewer
Explore Over 2.7k Plasmids: TA and GC Cloning Vectors | More Plasmid Sets
No matches
HomePlasmidsTA and GC Cloning VectorspCR4-TOPO (linearized)
AflIII - PciI (3537) SspI (2786) XmnI (2581) ScaI (2462) BglI (2102) BpmI (2052) AhdI (1982) RsrII (1509) SpeI (3924) PstI - SbfI (3935) PmeI (3940) End (3956) Start (1) NotI (14) BsiWI - SnaBI (207) BsrGI (267) BmgBI (328) BstXI (411) XcmI (809) BclI * (834) PflFI - Tth111I (1111) BanII (1358) SphI (1398) BtgI - NcoI (1425) NgoMIV (1493) NaeI (1495) pCR®4-TOPO® 3955 bp
AflIII  (3537)
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  (3537)
1 site		 A C A T G T T G T A C A
PciI is inhibited by nonionic detergents.
SspI  (2786)
1 site		 A A T A T T T T A T A A
XmnI  (2581)
1 site		 G A A N N N N T T C C T T N N N N A A G
ScaI  (2462)
1 site		 A G T A C T T C A T G A
BglI  (2102)
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.
BpmI  (2052)
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.
AhdI  (1982)
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.
RsrII  (1509)
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.
SpeI  (3924)
1 site		 A C T A G T T G A T C A
PstI  (3935)
1 site		 C T G C A G G A C G T C
SbfI  (3935)
1 site		 C C T G C A G G G G A C G T C C
PmeI  (3940)
1 site		 G T T T A A A C C A A A T T T G
End  (3956)
0 sites
Start  (1)
0 sites
NotI  (14)
1 site		 G C G G C C G C C G C C G G C G
BsiWI  (207)
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.
SnaBI  (207)
1 site		 T A C G T A A T G C A T
BsrGI  (267)
1 site		 T G T A C A A C A T G T
BsrGI is typically used at 37°C, but is even more active at 60°C.
BmgBI  (328)
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.
BstXI  (411)
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.
XcmI  (809)
1 site		 C C A N N N N N N N N N T G G G G T N N N N N N N N N A C C
The 1-base overhangs produced by XcmI may be hard to ligate.
Sticky ends from different XcmI sites may not be compatible.
BclI  (834)
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.
PflFI  (1111)
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  (1111)
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.
BanII  (1358)
1 site		 G R G C Y C C Y C G R G
Sticky ends from different BanII sites may not be compatible.
SphI  (1398)
1 site		 G C A T G C C G T A C G
BtgI  (1425)
1 site		 C C R Y G G G G Y R C C
Sticky ends from different BtgI sites may not be compatible.
NcoI  (1425)
1 site		 C C A T G G G G T A C C
NgoMIV  (1493)
1 site		 G C C G G C C G G C C G
Efficient cleavage requires at least two copies of the NgoMIV recognition sequence.
NaeI  (1495)
1 site		 G C C G G C C G G C C G
Efficient cleavage requires at least two copies of the NaeI recognition sequence.
AmpR
1909 .. 2769  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
   Segment 2:  
   1909 .. 2700  =  792 bp
   263 amino acids  =  28.9 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
AmpR
1909 .. 2769  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
   Segment 1:  signal sequence  
   2701 .. 2769  =  69 bp
   23 amino acids  =  2.6 kDa
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
AmpR
1909 .. 2769  =  861 bp
286 amino acids  =  31.6 kDa
2 segments
Product: β-lactamase
confers resistance to ampicillin, carbenicillin, and related antibiotics
NeoR/KanR
865 .. 1659  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
NeoR/KanR
865 .. 1659  =  795 bp
264 amino acids  =  29.0 kDa
Product: aminoglycoside phosphotransferase from Tn5
confers resistance to neomycin, kanamycin, and G418 (Geneticin)
ori
2893 .. 3481  =  589 bp
high-copy-number colE1/pMB1/pBR322/pUC origin of replication
ori
2893 .. 3481  =  589 bp
high-copy-number colE1/pMB1/pBR322/pUC origin of replication
lacZα
1 .. 204  =  204 bp
68 amino acids  =  7.8 kDa
Product: LacZα fragment of β-galactosidase
lacZα
1 .. 204  =  204 bp
68 amino acids  =  7.8 kDa
Product: LacZα fragment of β-galactosidase
ccdB
214 .. 516  =  303 bp
100 amino acids  =  11.6 kDa
Product: CcdB, a bacterial toxin that poisons DNA gyrase
ccdB
214 .. 516  =  303 bp
100 amino acids  =  11.6 kDa
Product: CcdB, a bacterial toxin that poisons DNA gyrase
lacZα
3879 .. 3956  =  78 bp
26 amino acids  =  2.7 kDa
Product: LacZα fragment of β-galactosidase
lacZα
3879 .. 3956  =  78 bp
26 amino acids  =  2.7 kDa
Product: LacZα fragment of β-galactosidase
lac promoter
3805 .. 3835  =  31 bp
3 segments
   Segment 1:  -35  
   3805 .. 3810  =  6 bp
promoter for the E. coli lac operon
lac promoter
3805 .. 3835  =  31 bp
3 segments
   Segment 2:  
   3811 .. 3828  =  18 bp
promoter for the E. coli lac operon
lac promoter
3805 .. 3835  =  31 bp
3 segments
   Segment 3:  -10  
   3829 .. 3835  =  7 bp
promoter for the E. coli lac operon
lac promoter
3805 .. 3835  =  31 bp
3 segments
promoter for the E. coli lac operon
lac operator
3843 .. 3859  =  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
3843 .. 3859  =  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).
T7 promoter
35 .. 53  =  19 bp
promoter for bacteriophage T7 RNA polymerase
T7 promoter
35 .. 53  =  19 bp
promoter for bacteriophage T7 RNA polymerase
T3 promoter
3904 .. 3922  =  19 bp
promoter for bacteriophage T3 RNA polymerase
T3 promoter
3904 .. 3922  =  19 bp
promoter for bacteriophage T3 RNA polymerase
M13 fwd
60 .. 76  =  17 bp
common sequencing primer, one of multiple similar variants
M13 fwd
60 .. 76  =  17 bp
common sequencing primer, one of multiple similar variants
M13 rev
3867 .. 3883  =  17 bp
common sequencing primer, one of multiple similar variants
M13 rev
3867 .. 3883  =  17 bp
common sequencing primer, one of multiple similar variants
ORF:  1 .. 516  =  516 bp
ORF:  171 amino acids  =  19.8 kDa  (no start codon)
ORF:  865 .. 1659  =  795 bp
ORF:  264 amino acids  =  29.0 kDa
ORF:  2 .. 310  =  309 bp
ORF:  102 amino acids  =  11.4 kDa  (no start codon)
ORF:  1037 .. 1423  =  387 bp
ORF:  128 amino acids  =  14.6 kDa
ORF:  2039 .. 2305  =  267 bp
ORF:  88 amino acids  =  9.2 kDa
ORF:  1174 .. 1707  =  534 bp
ORF:  177 amino acids  =  19.9 kDa
ORF:  1909 .. 2769  =  861 bp
ORF:  286 amino acids  =  31.6 kDa
Click here to try SnapGene

Download pCR4-TOPO (linearized).dna file

SnapGene

SnapGene is the easiest way to plan, visualize and document your everyday molecular biology procedures

  • Fast accurate construct design for all major molecular cloning techniques
  • Validate sequenced constructs using powerful alignment tools
  • Customize plasmid maps with flexible annotation and visualization controls
  • Automatically generate a rich graphical history of every edit and procedure
Download SnapGene

SnapGene Viewer

SnapGene Viewer is free software that allows molecular biologists to create, browse, and share richly annotated sequence files.

  • Gain unparalleled visibility of your plasmids, DNA and protein sequences
  • Annotate features on your plasmids using the curated feature database
  • Store, search, and share your sequences, files and maps
Download SnapGene Viewer

Individual Sequences & Maps

Allele TA Vector (linearized)
pCR2.1-TOPO (linearized)
pJAZZ-OK GC (left arm)
pSpark TA
pBAD-TOPO (linearized)
pCR4-TOPO (linearized)
pJAZZ-OK GC (right arm)
pSpark TA Done
pBAD Thio-TOPO (linearized)
pCR8 GW TOPO (linearized)
pLenti6.3 V5-TOPO (linearized)
pSTBlue-1 AccepTor
pBlue-TOPO (linearized)
pCRII-TOPO (linearized)
pLenti7.3 V5-TOPO (linearized)
pT7Blue T-Vector
pcDNA3.1 CT-GFP-TOPO (linearized)
pDrive (linearized)
pLPS-T (linearized)
pTA Plus (linearized)
pcDNA3.1 NT-GFP-TOPO (linearized)
pEF6 V5-His-TOPO (linearized)
pLUG (linearized)
pTargeT (linearized)
pcDNA3.1 V5-His-TOPO (linearized)
pENTR5'-TOPO (linearized)
pLUG-Multi (linearized)
pTOP TA V2 (linearized)
pcDNA3.3-TOPO (linearized)
pET SUMO (linearized)
pMT V5-His-TOPO (linearized)
pTrcHis-TOPO (linearized)
pcDNA3.4-TOPO (linearized)
pETBlue-1 AccepTor
pOptiVEC-TOPO (linearized)
pTrcHis2-TOPO (linearized)
pcDNA4 HisMax-TOPO (linearized)
pEXP5-CT TOPO (linearized)
pPrime (linearized)
pTZ57R_T
pcDNA5 FRT TO-TOPO (linearized)
pEXP5-NT TOPO (linearized)
pQE-30 UA (linearized)
pUC57-T
pcDNA5 FRT V5-His-TOPO (linearized)
pGC Blue (linearized)
pSC-A-amp kan (linearized)
pYES2.1 V5-His-TOPO (linearized)
pcDNA6.2 C-EmGFP-GW TOPO (linearized)
pGEM-T (linearized)
pSecTag FRT V5-His-TOPO (linearized)
RBC T&A Cloning Vector (linearized)
pcDNA6.2 C-YFP-GW TOPO (linearized)
pGEM-T Easy (linearized)
pSMART GC HK (linearized)
T-Vector pMD19 (Simple)
pcDNA6.2 N-EmGFP-GW TOPO (linearized)
pGlow-TOPO (linearized)
pSMART GC LK (linearized)
T-Vector pMD20
pCR-XL-TOPO (linearized)
pIB V5-His-TOPO (linearized)

Plasmid Sets

Basic Cloning Vectors
I.M.A.G.E. Consortium Plasmids
pET & Duet Vectors (Novagen)
TA and GC Cloning Vectors
Coronavirus Resources
Insect Cell Vectors
pGEX Vectors (GE Healthcare)
TOPO Cloning Vectors
CRISPR Plasmids
Luciferase Vectors
Plant Vectors
Viral Expression & Packaging Vectors
Fluorescent Protein Genes & Plasmids
Lucigen Vectors
Qiagen Vectors
Yeast Plasmids
Gateway® Cloning Vectors
Mammalian Expression Vectors
Structural Genomics Vectors

The maps, notes, and annotations in the zip file on this page 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.

Discover the most user-friendly molecular biology experience.
Try for Free