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Virus vector

Transposon resource

Cloning vector

  • Molecular engineering of a PheS counterselection marker for improved operating efficiency in Escherichia coli.
    Miyazaki, K.
    Biotechniques 58 (2): 86-88 (2015). PubMed PMID 25652032.

    Catalog# Resource name Description
    RDB17947 pUC18K_ePAG2 Cloning vector harboring counterselection marker Escherichia coli phenylalanyl-tRNA synthetase a-subunit (ePheS).
    RDB17948 pUC18Z_ePAG2 Cloning vector harboring counterselection marker Escherichia coli phenylalanyl-tRNA synthetase a-subunit (ePheS).
    RDB18372 pUC18K_mPAG2 Cloning vector harboring PheS counterselection marker. Kanamycin resistance.
    RDB18373 pUC18Z_mPAG2 Cloning vector harboring PheS counterselection marker. Zeocin resistance.
    RDB18374 pUC18C_mPAG2 Cloning vector harboring PheS counterselection marker. Chloramphenicol resistance.
  • A novel series of high-efficiency vectors for TA cloning and blunt-end cloning of PCR products.
    Motohashi, K.
    Sci. Rep. 9 (1): 6417 (2019). PubMed PMID 31015513.

    Catalog num. Clone name Description
    RDB17479 pCRT Plasmid vector for TA-cloning of PCR-products.
    RDB17481 pCRZero Plasmid vector for blunt-end cloning of PCR-products.
    RDB17480 pCRZeroT Bifunctional plasmid vector for TA-cloning and blunt-end cloning of PCR-products.

  • Engineering FRET constructs using CFP and YFP.
    Shimozono, S., Miyawaki, A.
    Methods Cell Biol. 85: 381-393 (2008). PubMed PMID 18155471.

    Catalog num. Clone name Description
    RDB15126 pBS coupler 1 Cloning vector to add a triple repeat of the amino acid linker Gly-Gly-Gly-Gly-Ser [(GGGGS)x3].
    RDB15127 pBS coupler 2 Cloning vector to add a triple repeat of the amino acid linker Gly-Gly-Gly-Gly-Ser [(GGGGS)x3].
    RDB15128 pBS coupler 3 Cloning vector to add a triple repeat of the amino acid linker Gly-Gly-Gly-Gly-Ser [(GGGGS)x3].
    RDB15129 pBS coupler 4 Cloning vector to add a triple repeat of the amino acid linker Gly-Gly-Gly-Gly-Ser [(GGGGS)x3].
    RDB15130 pBS coupler 5 Cloning vector to add a triple repeat of the amino acid linker Gly-Gly-Gly-Gly-Ser [(GGGGS)x3].
    RDB15131 pBS coupler 6 Cloning vector to add a triple repeat of the amino acid linker Gly-Gly-Gly-Gly-Ser [(GGGGS)x3].
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    Catalog num. Clone name Description
    RDB03699 pURV19-10 Cloning vector based on pUC19 with EcoRV site.

Cloning vector

  • Highly efficient induction of primate iPS cells by combining RNA transfection and chemical compounds.
    Watanabe, T., Yamazaki, S., Yoneda, N., Shinohara, H., Tomioka, I., Higuchi, Y., Yagoto, M., Ema, M., Suemizu, H., Kawai, K., Sasaki, E.
    Genes Cells 24 (7): 473-484 (2019). PubMed PMID 31099158.

    Catalog num. Clone name Description
    RDB18330 phBG Plasmid vector for in-vitro transcrioption, having two copies of 3′ UTR DNA fragment of human hemoglobin subunit beta (HBB)

shRNA expression

Catalog num. Clone name Description
RDB04395 pENTR4-H1 Expression vector of RNAi driven by human H1 promoter.
RDB07916 pENTR4-H1tetOx1 Expression vector of RNAi driven by human H1 promoter.

Mammalian expression

Catalog num. Clone name
Description		 Epitope tag Antibiotic/visual marker Promoter Cloning Antibiotics (bacteria)
RDB07939 pEF-BOS
Mammalian expression vector with human EF-1a.		 n.a. n.a. EF-1 alpha Restriction enzyme Amp
RDB07940 pEF-BOS-EX
Mammalian expression vector with human EF-1a.		 n.a. n.a. EF-1 alpha Restriction enzyme Amp
RDB18970 pNEF-BOS-EX
Mammalian expression vector based on human EF-1 alpha promoter with G418-resistant gene.		 n.a. G418 EF-1 alpha Restriction enzyme Amp
RDB18971 pPEF-BOS-EX
Mammalian expression vector based on human EF-1 alpha promoter with puromycin-resistant gene.		 n.a. puromycin EF-1 alpha Restriction enzyme Amp
RDB18972 pEF-Flag-EX
Mammalian expression vector based on human EF-1 alpha promoter for an N-terminally Flag tagged recombinant protein.		 FLAG n.a. EF-1 alpha Restriction enzyme Amp
RDB18973 pEF321-Flag-Ex
Mammalian expression vector based on human EF-1 alpha promoter.		 FLAG n.a. EF-1 alpha Restriction enzyme Amp
RDB18974 pEF-Fc
Expression vector of secreted recombinant chimeric protein for the extracellular region of a membrane protein with human Immunoglobulin heavy chain region.		 n.a. n.a. EF-1 alpha Restriction enzyme Amp


 

Catalog num. Clone name
Description		 Epitope tag Antibiotic/visual marker Promoter Cloning Antibiotics (bacteria)
RDB14213 pcDNA3.1-myc-GFP
Expression vector of N-terminally myc-GFP-tagged proteins in mammalian cells.		 myc-GFP Neo CMV Restriction enzyme Amp
RDB14401 pCIneoEGFPC2
Plasmid vector for constructing GFP-tagged expression vector.		 EGFP Neo CMV Restriction enzyme Amp
RDB05956 pCMV_S-FLAG
Expressing FLAG-tagged fusion protein, CMV promoter.		 FLAG Neo CMV Restriction enzyme Amp
RDB06083 pRSV_S-FLAG
Expressing FLAG-tagged fusion protein, RSV promoter.		 FLAG Neo RSV Restriction enzyme Amp
RDB07396 pCMV_S-FLAGc
Destination vector to generate eukaryotic expression vector, with FLAG-tag.		 FLAG Neo CMV Gateway(R) Amp
RDB07397 pRSV_s-FLAGc
Destination vector to generate eukaryotic expression vector, with FLAG-tag.		 FLAG Neo RSV Gateway(R) Amp
RDB14218 pcDNA5-FLAG/HA/SBP
Expression vector of N-terminally FLAG/HA/SBP tagged proteins in mammalian cells.		 FLAG/HA/SBP Hygro CMV Restriction enzyme Amp
RDB10461 pBRHCAG-cHA-pA
Expression vector with CAG promoter, HA-tag, hygromycin selection (hph).		 HA Hygro CAG Restriction enzyme Amp
RDB02136 S-HA-pRc/CMV
Expressing HA-tagged fusion protein, CMV promoter.		 HA Neo CMV Restriction enzyme Amp
RDB02139 D-HA-pRc/CMV
Expressing a fusion protein tagged with duplicated HA, CMV promoter.		 2xHA Neo CMV Restriction enzyme Amp
RDB07105 pBRPyCAG-cHA-IN
Expression vector with CAG promoter, HA-tag, Neoycin selection.		 HA Neo CAG Restriction enzyme Amp
RDB11391 pPyCAG-cHA-IN
Expression vector with CAG promoter, HA-tag, Neomycin selection.		 HA Neo CAG Restriction enzyme Amp
RDB12114 pPyCAG-cHA-IpacflexEGFP
Expression vector with CAG promoter, HA-tag, Puromycin selection. GFP marker.		 HA Puro & EGFP CAG Restriction enzyme Amp
RDB07101 pBRPyCAG-cHA-IP
Expression vector with CAG promoter, HA-tag, Puromycin selection.		 HA Puro CAG Restriction enzyme Amp
RDB07100 pPyCAG-cHA-IP
Expression vector with CAG promoter, HA-tag, Puromycin selection.		 HA Puro CAG Restriction enzyme Amp
RDB10479 pPyPGK-cHA-IP
Expression vector with mouse PGK promoter, HA-tag, IRESpuro.		 HA Puro PGK Restriction enzyme Amp
RDB10460 pBR-PyCAG-cHA-IP SVOri
Expression vector with CAG promoter, HA-tag, Puromycin selection.		 HA Puro CAG Restriction enzyme Amp
RDB10435 pBR-CAG-cHA-pA
Expression vector with CAG promoter, HA-tag.		 HA n.a. CAG Restriction enzyme Amp
RDB02140 S-Myc-pRc/CMV
Expressing Myc-tagged fusion protein, CMV promoter.		 Myc Neo CMV Restriction enzyme Amp
RDB02141 D-Myc-pRc/CMV
Expressing a fusion protein tagged with duplicated Myc epitopes, CMV promoter.		 2xMyc Neo CMV Restriction enzyme Amp
RDB02137 S-T7-pRc/CMV
Expressing T7-tagged fusion protein, CMV promoter.		 T7 Neo CMV Restriction enzyme Amp
RDB02138 D-T7-pRc/CMV
Expressing a fusion protein tagged with duplicated T7, CMV promoter.		 2xT7 Neo CMV Restriction enzyme Amp
RDB12113 pPyCAG-BstXI-ZeoP2AEGFP
Expression vector with CAG promoter, HA-tag, Bleomycin (Zeo) selection. GFP marker.		 n.a. Bleo(Zeo) & EGFP CAG Restriction enzyme(BstXI) Amp
RDB09315 pPyCAG-IRESzeocinpA (+SVori)
Expression vector with CAG promoter, IRES-zeo.		 n.a. Bleo(Zeo) CAG Restriction enzyme (BstXI) Amp
RDB09297 pZPCAGGS
Expression vector with CAG promoter, Zeo marker.		 n.a. Bleo(Zeo) CAG Restriction enzyme (BstXI) Amp
RDB12107 pPyCAG-BstXI-IB
Mammalian expression vector. Blasticidin resistance.		 n.a. BSD CAG Restriction enzyme(BstXI) Amp
RDB12112 pPyCAG-BstXI-IHisDflexEGFP
Expression vector with CAG promoter, HA-tag, HisD selection. GFP marker.		 n.a. HisD & EGFP CAG Restriction enzyme(BstXI) Amp
RDB10322 pPyCAG-BstXI-IRSHisDpA
Expression vector of IRES-HisD with CAG promoter.		 n.a. HisD CAG Restriction enzyme (BstXI) Amp
RDB12108 pPyCAG-BstXI-HygP2AEGFP
Expression vector with CAG promoter, HA-tag, Hygromycin selection. GFP marker.		 n.a. Hygro & EGFP CAG Restriction enzyme(BstXI) Amp
RDB09233 pPyCAG-BstXI-IREShygropA
Expression vector of CAG promoter, IRES-hygromycin resistance.		 n.a. Hygro CAG Restriction enzyme(BstXI) Amp
RDB09694 pCAGGSneo-delta-EcoRI
Expression vector with CAG promoter and b-globin poly(A) (with SV40 ori), neo marker.		 n.a. Neo CAG Restriction enzyme Amp
RDB07099 pPyCAG-BstXI-IP
Mammalian expression vector. Blasticidin resistance.		 n.a. Puro CAG Restriction enzyme(BstXI) Amp
RDB01968 pBMSA
Expression vector, inducible MMTV-LTR promoter.		 n.a. n.a. MMTV-LTR Restriction enzyme (XbaI) Amp
RDB08938 pCAGGS
Mammalian expression vector with CAG promoter.		 n.a. n.a. CAG Restriction enzyme Amp
RDB14136 pIDT-SMART(C-TSC)
Mammalian xpression vector with the improved high expression cassette C-TSC.		 n.a. n.a. CMV-TSC Restriction enzyme Kan
RDB19684 pMWcmvT7-KpnI-pA
Infusion/Gibson assembly platform vector for dual ussage mammalian expression and T7 In Vitro Transcription. Bacterial strictly low copy number plasmid (pMW219 backbone).		 n.a. n.a. CMV Infusion/Gibson assembly Kan
RDB19683 pBRcmvT7-KpnI-pA
Infusion/Gibson assembly platform vectorfor dual ussage mammalian expression and T7 In Vitro Transcription. Bacterial relatively low copy number plasmid (pBR322 backbone). Tetracyclin resistance gene has been truncated.		 n.a. n.a. CMV Infusion/Gibson assembly Amp
RDB19682 pcmvT7-KpnI-polyA
Infusion/Gibson assembly platform vector for dual ussage mammalian expression and T7 In Vitro Transcription. Bacterial high copy number plasmid (pCDNA3 backbone).		 n.a. Neo CMV Infusion/Gibson assembly Amp

 

Catalog num. Clone name Description
RDB01379 pH2Rneo Expression vector with simian virus 40 (SV40) early promoter
RDB01679 pCALwL A cassette plasmid to insert cDNA into downstream CAG promoter
RDB01862 pCALNL5 A cassette to introduce cDNA into mammalian chromosome

 

Vector for marker knock-in (genome editing)

  • Rapid Protein Depletion in Human Cells by Auxin-Inducible Degron Tagging with Short Homology Donors.
    Natsume, T., Kiyomitsu, T., Saga, Y., Kanemaki, M.T.
    Cell Rep. 15 (1): 210-218 (2016). PubMed PMID 27052166.

    Selection marker Attached tag at the N-terminus
    mClover mCherry2 S tag-3FLAG
    Hygro pMK376 pMK377 pMK375

     

    Selection marker Attached tag at the C-terminus
    mClover mCherry2 S tag-3FLAG
    Neo pMK277 pMK280 pMK283
    Hygro pMK278 pMK281 pMK284
    BSD pMK388 pMK389 pMK390
    Bsr pMK279 pMK282 pMK285

    Please refer Fig. 4 of Natsume, T., Cell Reports 15, 210-218 (2016) for an instruction about how to use these clones.

Supernova series

Supernova: A Versatile Vector System for Single-Cell Labeling and Gene Function Studies in vivo.

Luo, W., Mizuno, H., Iwata, R., Nakazawa, S., Yasuda, K., Itohara, S,, Iwasato, T.
Sci. Rep. 6: 35747 (2016). PubMed PMID 27775045.

NMDAR-regulated dynamics of layer 4 neuronal dendrites during thalamocortical reorganization in neonates.

Mizuno, H., Luo, W., Tarusawa, E., Saito, Y.M., Sato, T., Yoshimura, Y., Itohara, S., Iwasato, T.
Neuron 82 (2): 365-379 (2014). PubMed PMID 24685175.

Catalog # Name of clone Running title
RDB15043 pK031.TRE-Cre (Supernova) Cre-based Supernova series, a versatile vector system for single-cell labeling relies on low tetracycline response (TRE) leakage in vivo. Expression vector of TRE-Cre recombinase.
RDB15045 pK038.CAG-loxP-stop-loxP-EGFP-ires-tTA-WPRE (Supernova) Cre-based Supernova series. Expression vector of loxP-stop-loxP-EGFP under the CAG promoter.
RDB15046 pK036.TRE-Flpe-WPRE (Supernova) Flippase (Flpe)-based Supernova series, a versatile vector system for single-cell labeling relies on low tetracycline response (TRE) leakage in vivo. Expression vector of TRE-Flpe recombinase.
RDB15047 pK068.CAG-FRT-stop-FRT-EGFP-ires-tTA-WPRE (Supernova) Flippase (Flpe)-based Supernova series. Expression vector of FRT-stop-FRT-EGFP under the CAG promoter.
RDB15050 pK170.AAV-TRE-Cre-WPRE (Supernova) Adeno-associated virus (AAV)-based Supernova series, a versatile vector system for single-cell labeling relies on low tetracycline response (TRE) leakage in vivo. Expression vector of TRE-Cre recombinase.
RDB15051 pK237.U6-Chimeric-CAG-loxP-stop-loxP-hspCas9 (Supernova) Supernova series, a versatile vector system for single-cell labeling in vivo. Expression vector of loxP-stop-loxP-Cas9 under the CAG promoter.
RDB15053 pK073.TRE-Dre-WPRE (Supernova) Dre-based Supernova series, a versatile vector system for single-cell labeling relies on low tetracycline response (TRE) leakage in vivo. Expression vector of TRE-Dre recombinase.
RDB15055 pK224.CAG-Rox-STOP-Rox-GFP-ires-tTA-WPRE (Supernova) Dre-based Supernova series. Expression vector of Rox-stop-Rox-GFP under the CAG promoter.
RDB15056 pK039.CAG-loxP-stop-loxP-AmCyan-ires-tTA-WPRE (Supernova) Cre-based Supernova series. Cre-mediated recombination, a loxP-stop-loxP is excised and the downstream AmCyan is expressed.
RDB15057 pK238.U6-gRNACreb1-CAG-loxP-stop-loxP-hspCas9 (Supernova) Supernova series, a versatile vector system for single-cell labeling in vivo. Expression vector of both loxP-stop-loxP-Cas9 and gRNA (Creb1 as the target gene) under the CAG promoter.
RDB15058 pK177.CAG-loxP-stop-loxP-mir30 (GFP RNAi) (Supernova) Cre-based Supernova series, a supernova-mediated RNAi enables sparsely labeled cell-specific gene knockdown without using genetically altered mice.
RDB15059 pK178.CAG-loxP-stop-loxP-mir30 (GFP RNAi scramble control) (Supernova) Cre-based Supernova series, a supernova-mediated RNAi enables sparsely labeled cell-specific gene knockdown without using genetically altered mice.
RDB15061 pK229.AAV-EF1alpha-EGFP-WPRE (Supernova) Adeno-associated virus (AAV)-based Supernova series. This clone will be used as a control in AAV-based Supernova experiments.

Plasmid for IR/MAR gene amplification method and related plasmid.

Catalog # Name of resource Description
RDB18704 pSFVdhfr A clone for the IR/MAR gene amplification method. Co-transfected expression vectors with this clone can be amplified in the transfected cells.
RDB18705 pdeltaBN.AR1 A clone for the IR/MAR gene amplification method. Co-transfected expression vectors with this clone can be amplified in the transfected cells.
RDB18706 pdeltaBM.AR1.MCS A clone for the IR/MAR gene amplification method. By cloning an expression unit of interested gene into the MCS, amplified gene expression can be obtained.
RDB18707 pdeltaBM.AR1.d2EGFP A clone for the IR/MAR gene amplification method. This clone is used for monitoring the gene amplification by observation of GFP fluorescence.
RDB18708 pB-3-31 Plasmid clone of 3,271 bp human genomic sequence, B-3-31, which is known to enhance the expression of co-transfected expression vectors.
RDB18709 pG5 Plasmid clone of 972 bp human G5 sequence, which was isolated from beta-globin replication origin as a minimum sequence required for gene amplification.
RDB18710 pC12 Plasmid clone of 798 bp human C12 sequence, which was isolated from MYC replication origin as a minimum sequence required for gene amplification.
RDB18711 pD8 Plasmid clone of 2,347 bp Chinese hamster D8 sequence, which was isolated from DHFR replication origin as a minimum sequence required for gene amplification.
  • Araki, Y., Efficient recombinant production in mammalian cells using a novel IR/MAR gene amplification method. PLoS One, 7 (7): e41787 (2012). PMID 22844523. (original). [link to RRC of NBRP]
  • Fukuma, M., Cloning and Characterization of a Human Genomic Sequence that Alleviates Repeat-Induced Gene Silencing. PLoS One 11 (4): e0153338 (2016). PMID 27078685. (original). [link to RRC of NBRP]
  • Harada, S., Episomal high copy number maintenance of hairpin-capped DNA bearing a replication initiation region in human cells. J. Biol. Chem. 284 (36): 24320-24327 (2009). PMID 19617622. (original). [link to RRC of NBRP]
  • Hashizume, T., Dissection of mammalian replicators by a novel plasmid stability assay. J. Cell Biochem. 101 (3): 552-565 (2007). PMID 17226771. (original). [link to RRC of NBRP]
  • Okada, N., Dissection of the beta-globin replication-initiation region reveals specific requirements for replicator elements during gene amplification. PLoS One 8 (10): e77350 (2013). PMID 24124615. (original). [link to RRC of NBRP]
  • Shimizu, N., Plasmids with a mammalian replication origin and a matrix attachment region initiate the event similar to gene amplification. Cancer Res. 61 (19): 6987-6990 (2001). PMID 11585721. (original). [link to RRC of NBRP]
  • Shimizu, N., Amplification of plasmids containing a mammalian replication initiation region is mediated by controllable conflict between replication and transcription. Cancer Res. 63 (17): 5281-5290 (2003). PMID 14500359. (original). [link to RRC of NBRP]

Insect Cell Experiment

Catalog num. Clone name
Description		 Epitope tag Antibiotic/visual marker Cloning Promoter Bacterial resistance
RDB08532 pMT-PURO
Metametallothionein promoter expression vector with puromycin resistance gene for Schneider 2 (S2) Drosophila cells.		 His-V5 Puro Restriction enzyme MT Amp
RDB12152 pMT-PURO2
Metametallothionein promoter expression vector with puromycin resistance gene for Schneider 2 (S2) Drosophila cells		 His-V5 Puro Restriction enzyme MT Amp
RDB09002 pMAK17
Expression clone of EGFP under the control of tet inducible promoter. Puromycin serectable.		 – Puro & DsRed2 – tight TRE Amp
RDB09003 pMAK42
Expression vector under the control of tet inducible promoter. Puromycin serectable.		 – Puro & DsRed2 Restriction enzyme tight TRE Amp
RDB09004 pMT-PURO2G
Metametallothionein promoter expression vector with EGFP marker for Schneider 2 (S2) Drosophila cells		 His-V5 Puro & EGFP Restriction enzyme MT Amp
RDB09005 pMT-PURO2R
Metametallothionein promoter expression vector with DsRED2 marker for Schneider 2 (S2) Drosophila cells		 His-V5 Puro& DsRed Restriction enzyme MT Amp
RDB08531 pCoPURO
Copia promoter expression vector of puromycin resistant gene for Schneider 2 (S2) Drosophila cells.		 n.a. Puro n.a. copia Amp
RDB08035 pUAST-GFPN-lacZ
P-element mediated gene transfer vector of GFP-N and lacZ.		 n.a. GFP-lacZ n.a. Gal4-UAS Amp

Bacteria Experiment

Plasmid vectors and host strains of E. coli, Bifidobacterium and Bacillus experiment are avaiable.

Empty Backbone for Yeast Experiment

Fungi Experiment

pFungiway: a series of plasmid vectors used for gene manipulation in fungi.

Nishikawa, R., Yoshida, M., Noda, T., Okuhara, T., Taguchi, G., Inatomi, S., Shimosaka, M.
Annals of Microbiology 66: 825-832 (2016). doi: 10.1007/s13213-015-1166-2.

Catalog num. Clone name Description
RDB19266 pFungiway1 Plasmid vector used for gene manipulation in fungi, Expresion type, Hygromycin B-resistant selective marker. Gateway(R) cloning technology vector.
RDB19267 pFungiway2 Plasmid vector used for gene manipulation in fungi, Expression type, Hygromycin B-resistant selective marker. Gateway(R) cloning technology vector.
RDB19268 pFungiway3 Plasmid vector used for gene manipulation in fungi, Expression type, G418-resistant selective marker. Gateway(R) cloning technology vector.
RDB19270 pFungiway5 Plasmid vector used for gene manipulation in fungi, Repression type, Hygromycin B-resistant selective marker. Gateway(R) cloning technology vector.
RDB19271 pFungiway6 Plasmid vector used for gene manipulation in fungi, Repression type, G418-resistant selective marker. Gateway(R) cloning technology vector.
RDB19272 pFungiway7 Plasmid vector used for gene manipulation in fungi, Expression type, Both Hygromycin B- and G418-resistant selective markers. Gateway(R) cloning technology vector.
RDB19273 pFungiway8 Plasmid vector used for gene manipulation in fungi, Repression type, Both Hygromycin B- and G418-resistant selective markers. Gateway(R) cloning technology vector.

Plant Experiment

 

Catalog num. Clone name Description
RDB02933 pBAc3 pBAc3 enhancer trap vector in rice.
RDB08246 pCIYVV-Pst/CP Plant expression vector constructed from clover yellow vein virus.

Please visit the Experimental Plant Division for more plant DNA clones such as pGWB vectors developed by Prof. Nakagawa Lab.

(GRP0048e 2010.04.24 T.M.)

2024.11.23



 

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