Vector Maps

The MISSION research and development team, in collaboration with the RNAi Consortium (TRC) scientists, has generated a series of vectors to enable the successful implementation of your RNAi experiments. The base vector pLKO.1-puro was developed1 at the Broad Institute as part of TRC. Our contribution to TRC is a diverse set of vectors for critical control experiments, as well as vectors for custom shRNA production. This page contains information pertaining to these vectors.

pLKO.1-puro sequence (without shRNA insert)

TRC1.5 Vector: pLKO.1-puro
TRC1.5 Control Vectors
TRC1.5 Alternate Vector Backbones
TRC2 Vector: TRC2-pLKO-puro
Inducible shRNA Vectors
Lentiviral Packaging Vectors
References

TRC1.5 Vector: pLKO.1-puro Vector and Use

TRC1.5 clones are in the exact same vector backbone as the TRC1 clones

Features of the pLKO.1-puro vector allow for transient or stable transfection of the shRNA as well as production of lentiviral particles.¹ Stable gene silencing is selected using the puromycin selectable marker while self-inactivating replication incompetent viral particles can be produced in packaging cells (HEK293T) by co-transfection with compatible packaging plasmids.^2,3 Exclusive to our portfolio, TRC1.5 contains almost 200,000 clones including more than 49,000 validated clones. It combines all of the content from TRC1 plus an additional 39,212 clones targeting 2,661 new human genes and 2,395 mouse genes. Unlike adenovirus or murine-based MMLV or MSCV retroviral systems, lentiviral-based particles permit efficient infection and integration of the specific shRNA construct into differentiated and non-dividing cells, such as neurons and dendritic cells, overcoming low transfection and integration difficulties when using these cell lines. Compared to siRNA and other vector-based systems, pLKO.1-puro provides solutions for long-term knockdown and phenotypic observation, transduction of difficult or sensitive cell lines (non-dividing cells or primary cells), and is an economical renewable resource.

With an shRNA insert, the length of the pLKO.1-puro plasmid is 7,086 bp, as indicated in the vector map below. Without an shRNA insert, pLKO.1-puro vector has a length of 7,052 bp. The sequence file provided is the empty pLKO.1-puro vector (7,052 bp).

TRC1.5 Vector Map (pLKO.1-puro)

TRC1.5 Vector Description and Features

Name	Description
cppt	Central polypurine tract
hPGK	Human phosphoglycerate kinase eukaryotic promoter
puroR	Puromycin resistance gene for mammalian selection
SIN/LTR	3' self inactivating long terminal repeat
f1 ori	f1 origin of replication
ampR	Ampicillin resistance gene for bacterial selection
pUC ori	pUC origin of replication
5' LTR	5' long terminal repeat
Psi	RNA packaging signal
RRE	Rev response element

TRC1.5 Control Vectors

We offer a variety of controls for conducting the most rigorous and informative shRNA experiments possible. Visit the shRNA controls web page to learn more.

Product	Purpose	Vector Map	Vector File
SHC001	Empty vector (no shRNA insert) Control	SHC001	SHC001
SHC002	Non-Mammalian shRNA Control	SHC002	SHC002
SHC003	TurboGFP Control	SHC003	SHC003
SHC004	TurboGFP shRNA Control	SHC004	SHC004
SHC005	eGFP shRNA Control	SHC005	SHC005
SHC007	Luciferase shRNA Control	SHC007	SHC007
SHC008	B2M shRNA Control	SHC008	SHC008
SHC009	ARHGDIA shRNA Control	SHC009	SHC009
SHC010	CMV-TagCFP™ Control	SHC010	SHC010
SHC011	CMV-TagYFP™ Control	SHC011	SHC011
SHC012	CMV-TagRFP™ Control	SHC012	SHC012
SHC013	CMV-TagFP635™ Control	SHC013	SHC013
SHC014	UbC-TurboGFP™ Control	SHC014	SHC014
SHC015	UbC-TagFP635™ Control	SHC015	SHC015
SHC016	Non-Target shRNA Control	SHC016	SHC016

TRC1.5 Alternate Vector Backbones

We offer a variety of alternate vector backbones as part of our standard shRNA offering. With our customizable MISSION shRNA ordering interface, it is possible to order TRC shRNAs in these vector backbones directly online on the clones detail pages for Plasmid DNA or Lentiviral Transduction Particles. For custom hairpins, please visit our custom cloning page for details on ordering.

Product	Purpose	Vector Map	Vector File
pLKO.1-CMV-Neo	Alternate vector backbone	pLKO.1-CMV-Neo	pLKO.1-CMV-Neo
pLKO.1-Neo	Alternate vector backbone	pLKO.1-Neo	pLKO.1-Neo
pLKO.1-CMV-tGFP	Alternate vector backbone	pLKO.1-CMV-tGFP	pLKO.1-CMV-tGFP
pLKO.1-Neo-CMV-tGFP	Alternate vector backbone	pLKO.1-Neo-CMV-tGFP	pLKO.1-Neo-CMV-tGFP
pLKO.1-puro-CMV-tGFP	Alternate vector backbone	pLKO.1-puro-CMV-tGFP	pLKO.1-puro-CMV-tGFP

We also offer several alternate vector backbones with fluorescent proteins or the UbC promoter. These constructs are available only as custom options. Please visit our custom cloning page for details on ordering.

Product	Purpose	Vector Map	Vector File
pLKO.1-puro-CMV-TagCFP™	Alternate vector backbone	pLKO.1-puro-CMV-TagCFP	pLKO.1-puro-CMV-TagCFP
pLKO.1-puro-CMV-TagYFP™	Alternate vector backbone	pLKO.1-puro-CMV-TagYFP	pLKO.1-puro-CMV-TagYFP
pLKO.1-puro-CMV-TagRFP™	Alternate vector backbone	pLKO.1-puro-CMV-TagRFP	pLKO.1-puro-CMV-TagRFP
pLKO.1-puro-CMV-TagFP635™	Alternate vector backbone	pLKO.1-puro-CMV-TagFP635	pLKO.1-puro-CMV-TagFP635
pLKO.1-puro-UbC-TurboGFP™	Alternate vector backbone	pLKO.1-puro-UbC-TurboGFP	pLKO.1-puro-UbC-TurboGFP
pLKO.1-puro-UbC-TagFP635™	Alternate vector backbone	pLKO.1-puro-UbC-TagFP635	pLKO.1-puro-UbC-TagFP635

TRC2 Vector: TRC2-pLKO-puro Vector and Use

The TRC2-pLKO-puro vector also allows for transient or stable transfection of the shRNA as well as the production of lentiviral particles. The only change between the TRC1.5 vector and the TRC2 vector is the addition of the WPRE (or the Woodchuck Hepatitis Post-Transcriptional Regulatory Element).⁴ This allows for enhanced expression of transgenes delivered by lentivirus.⁵ As with TRC1.5, stable gene silencing is achieved by using the puromycin selectable marker. Self-inactivating replication incompetent viral particles can be produced in packaging cells (HEK293T) by co-transfection with compatible packaging plasmids. TRC2-pLKO-puro provides solutions for stable long-term knockdown and phenotypic observation, transduction of difficult or sensitive cell lines (non-dividing cells or primary cells), and enhanced expression of transgenes.

With an shRNA insert, the length of the TRC2-pLKO-puro plasmid is 7,518 bp, as indicated in the vector map below. Without an shRNA insert, the TRC2-pLKO-puro vector has a length of 7,484 bp. The sequence file provided is the empty TRC2-pLKO-puro vector (7,484 bp).

TRC2-pLKO-puro sequence (without shRNA insert)

TRC2 Vector Map (TRC2-pLKO-puro)

TRC2 Vector Description and Features

Name	Description
cppt	Central polypurine tract
hPGK	Human phosphoglycerate kinase eukaryotic promoter
puroR	Puromycin resistance gene for mammalian selection
WPRE	Woodchuck Hepatitis Post-Transcriptional Regulatory Element
SIN/LTR	3' self inactivating long terminal repeat
f1 ori	f1 origin of replication
ampR	Ampicillin resistance gene for bacterial selection
pUC ori	pUC origin of replication
5' LTR	5' long terminal repeat
Psi	RNA packaging signal
RRE	Rev response element

TRC2 Control Vectors

Product	Purpose	Vector Map	Vector File
SHC201	Empty TRC2 vector (no shRNA insert) Control	SHC201	SHC201
SHC202	Non-Target shRNA Control	SHC202	SHC202
SHC203	TurboGFP Control	SHC203	SHC203
SHC204	TurboGFP shRNA Control	SHC204	SHC204

Please note: At this time, there are no alternate vector backbones available for TRC2.

Inducible shRNA Vectors

The pLKO vector has been redesigned to contain a LacI (repressor) and a modified human U6 shRNA promoter with LacO (operator) sequences. In the absence of IPTG (isopropyl-β-D-thio-galactoside), an analogue of lactose, LacI binds to LacO preventing expression of the shRNA. When IPTG is present, the allosteric LacI repressor changes conformation, releasing itself from lacO modified human U6 promoter, and subsequently allows expression of the shRNA.

We are proud to offer two different IPTG inducible vectors for your research. The preferred inducible vector, pLKO-puro-IPTG-3xLacO, contains three lac operon sequences (two in the U6 promoter and one 3' of the promoter) affording both tight regulation and great gene silencing. Whereas, the pLKO-puro-IPTG-1xLacO vector contains a single lac operon sequence in the U6 promoter, which allows for an advantage to shRNA expression, but looser control of the promoter when not induced.

Product	Purpose	Vector Map	Vector File
pLKO-puro-IPTG-1xLacO	Alternate vector backbone	pLKO-puro-IPTG-1xLacO	pLKO-puro-IPTG-1xLacO
pLKO-puro-IPTG-3xLacO	Alternate vector backbone	pLKO-puro-IPTG-3xLacO	pLKO-puro-IPTG-3xLacO

Lentiviral Packaging Vectors

Finally, for those wanting to package their own lentivirus, we offer the optimized packaging mix. Visit the Lentiviral packaging mix web page to learn more.

Product	Purpose	Vector Map	Vector File
SHP001 pMISSIONgagpol	Packaging Vector #1	pMISSIONgagpol	pMISSIONgagpol
SHP001 pMISSIONvsvg	Packaging Vector #2	pMISSIONvsvg	pMISSIONvsvg

References

1. Stewart, S. A. et al. Lentivirus-delivered stable gene silencing by RNAi in primary cells. RNA 2003, 9, 493–501.. https://doi.org/10.1261/rna.2192803

2. Zufferey, R. et al. Multiply attenuated lentiviral vector achieves efficient gene delivery in vivo. Nat. Biotechnol 1997, 15, 871–85.. https://doi.org/10.1038/nbt0997-871

3. Zufferey, R. et al. Self-inactivating lentivirus vector for safe and efficient in vivo gene delivery. J. Virol. 1998, 72, 9873–80.. https://doi.org/10.1128/JVI.72.12.9873-9880.1998

4. Donello J. E. et al. Woodchuck hepatitis virus contains a tripartite posttranscriptional regulatory element. J. Virol. 1998, 72, 5085-92.. https://doi.org/10.1128/JVI.72.6.5085-5092.1998

5. Zufferey, R. et al. Woodchuck hepatitis virus posttranscriptional regulatory element enhances expression of transgenes delivered by retroviral vectors. J. Virol. 1999, 73, 2886-92.. https://doi.org/10.1128/JVI.73.4.2886-2892.1999

Contact Us

For questions about the library, pricing and quotes or other concerns, please e-mail us at: MISSIONRNAi@sial.com.