Shop All DNA⁄RNA Labeling Kits

HT WT Terminal Labeling and Controls Kit (Applied Biosystems™)

The HT WT Terminal Labeling and Controls Kit is used with the WT Expression Kit for High-Throughput Robotics (sold separately). Both products can be combined with the HT WT Expression Assay Consumables for Biomek FXp Target Prep Express (sold seaprately) for customers who use the Beckman Coulter Biomek™ FXp Target Prep Express Instrument.

The HT WT Terminal Labeling and Controls Kit contains the GeneChip™ HT WT Terminal Labeling Kit, GeneChip; Hybridization Control Kit, and GeneChipPoly-A Control Kit.

Key Features
• Low RNA input requirements — as little as 100 ng total RNA for a single round of amplification
• No separate rRNA depletion step
• Magnetic bead purification for enhanced recovery and ease of use
• StreamLined workflow for simplified protocol and reduced hands-on time
• Unbiased coverage of the transcriptome

The WT Expression Kit for High-Throughput Robotics includes:
• All reagents needed to generate sense cDNA ready for fragmentation and labeling
• Magnetic beads for enhanced purification efficiency

The HT WT Terminal Labeling and Controls Kit includes:
• WT Fragmentation and Labeling Kit required for target produced by the WT Expression Kit for High-Throughput Robotics
• Poly-A controls are added to input RNA to measure efficiency of target amplification by the WT Expression Kit for High-Throughput Robotics
• Hybridization controls that monitor the hybridization process for troubleshooting purposes

Related Links
HT WT Expression Assay Consumables for Biomek FXp Target Prep Express
HT WT Terminal Labeling and Controls Kit

BioNick™ DNA Labeling System (Invitrogen™)

The BioNick™ DNA Labeling System is ideal for generating biotinylated DNA probes by nick translation optimized for use in non-radioactive in situ hybridizations. These probes can also be used in Southern or northern blots, plaque lifts, colony hybridizations, and dot blot hybridizations. Using the BioNick™ DNA Labeling System:

• DNA is labeled with biotin-14-dATP, producing probe sizes from 50 to 500 bp
• One reaction labels 1 µg of template DNA

Ulysis™ Alexa Fluor™ 488 Nucleic Acid Labeling Kit (Invitrogen™)

ULYSIS® Nucleic Acid Labeling Kits provide a unique method to attach a fluorescent dye to nucleic acids. The labeling reagent in the kit reacts with the N7 of guanine to form a stable coordination complex, and the reaction is simple and fast—just heat denature DNA (5 minutes), add the label (react for 15 minutes), then purify.

ULYSIS® Nucleic Acid Labeling Specifications:
• Dye (Ex/Em): Alexa Fluor® 488 (492/520 nm)
• Labeling reaction is complete in as little as 15 minutes
• Available in several Alexa Fluor® dye colors


The Resulting Labeled Probe is useful for:
• Dot, northern, and Southern blots
• RNA and DNA in situ hybridization
• Multicolor fluorescence in situ hybridization (mFISH)
• Comparative genome hybridization (CGH)
• Microarray analysis

Reliable Labeling With the Universal Linkage System
We developed this series of ULYSIS® kits to enable rapid and simple coupling of our Alexa Fluor® dyes to purine bases in nucleic acid polymers. The method, the Universal Linkage System (ULS™), is based on the use of a platinum dye complex (owned by KREATECH Diagnostics) that forms a stable adduct with the N7 position of guanine and, to a lesser extent, adenine bases in DNA, RNA, PNA, and oligonucleotides. The result is a reliable nonenzymatic method for nucleic acid labeling.

Labeling is Fast and Easy
The labeling reaction typically takes only 15 minutes, and separation of the labeled nucleic acids from the unreacted ULS™ complex can be accomplished through the use of a simple spin-column procedure. DNA longer than ~1,000 base pairs requires a 10-minute DNase digestion before labeling, which both optimizes labeling and fragments the probe for efficient hybridization.

More Options for Nucleic Acid Labeling
To review various options for nucleic acid labeling, review Labeling Oligonucleotides and Nucleic Acids—Section 8.2 in the Molecular Probes® Handbook or view a list of our kits.

For Research Use Only. Not intended for human or animal therapeutic or diagnostic use.

North2South™ Biotin Random Prime DNA Labeling Kit (Thermo Scientific™)

Thermo Scientific North2South Random Prime DNA Biotinylation Kit uses random heptanucleotides, Klenow fragment and biotin-nucleotides to produce biotinylated DNA templates for DNA hybridization and detection methods.

Features of the North2South Random Prime DNA Biotinylation Kit:

• Works with as little as 100ng starting DNA template
• Exonuclease-free Klenow fragment in the DNA labeling kit produces higher yields
• Each reaction yields probe sufficient for approximately three (10 x 10 cm) blots

This random prime DNA labeling kit is based on the procedure of Feinberg and Vogelstein (Ref.4,5). Random heptanucleotides containing all possible sequences are annealed to a denatured DNA template. These act as primers for complementary strand synthesis by DNA Polymerase (Klenow fragment, 3'-5' exo-). Biotinylated dNTPs in the reaction mix are incorporated into the newly synthesized DNA. This protocol yields biotin-labeled DNA of high activity for use as probes in hybridization experiments such as Southern and Northern hybridizations. The resulting hybrids can be detected with streptavidin-horseradish peroxidase (HRP) and a chemiluminescent substrate kit such as North2South Chemiluminescent Hybridization and Detection Kit.

Pierce™ Biotin 3' End DNA Labeling Kit (Thermo Scientific™)

The Thermo Scientific Pierce Biotin 3' End DNA Labeling Kit is for tagging single-stranded DNA primers with biotin for use in non-radioactive electrophoretic mobility shift assays (EMSA) and other nucleic acid detection methods.

The DNA biotinylation procedure uses terminal deoxynucleotidyl transferase (TdT) to catalyze nontemplate-directed nucleotide incorporation onto the 3'-OH end of single-stranded DNA. TdT exhibits a substrate preference of single-stranded DNA, but it will label duplex DNA with 3' overhangs and blunt duplexes, albeit with a lower efficiency.

Features of the Biotin 3' End DNA Labeling Kit:

• Non-isotopic labeling eliminates the hassle of hazardous radioactive materials or difficult-to-dispose-of waste
• 1-3 biotinylated ribonucleotides onto the 3' end of DNA strands for less interference with hybridization or sequence-specific binding of proteins
• Biotin-labeled probes are stable for more than one year
• 30-minute labeling procedure is fast and efficient

The Biotin 3' End DNA Labeling Kit has been optimized to incorporate 1-3 biotinylated ribonucleotides (Biotin-11-UTP) onto the 3' end of DNA strands. This labeling strategy has the advantage of localizing the biotin to the 3' end of the probe where it will be less likely to interfere with hybridization or sequence-specific binding of proteins. Biotin-labeled DNA probes can be used to facilitate non-isotopic detection in a variety of applications including electrophoretic mobility shift assays (EMSA), Northern or Southern blots, colony hybridizations or in situ hybridizations.

BioPrime™ DNA Labeling System (Invitrogen™)

The BioPrime® DNA Labeling System is specifically designed for use in the preparation of biotinylated probes. Random primers (octamers) are annealed to the denatured DNA template and extended by Klenow fragment in the presence of biotin-14-dCTP to produce sensitive biotinylated-DNA probes for use in the nonradioactive detection of DNA and RNA. With the BioPrime® DNA Labeling System, considerable net DNA synthesis occurs resulting in a 10–40 fold amplification of the probe. This product is particularly well suited for situations in which the DNA is limited. Probes made with this product have been used for hybridization to Southern and northern blots, plaque and colony lifts, and for in situ hybridization to chromosome spreads. The BioPrime® DNA Labeling System:

• Requires less template DNA than nick translation
• Amplifies template to provide an increased amount of biotinylated probe
• Labels 50 to 500 ng of template DNA in one reaction

Ulysis™ Alexa Fluor™ 546 Nucleic Acid Labeling Kit (Invitrogen™)

ULYSIS® Nucleic Acid Labeling Kits provide a unique method to attach a fluorescent dye to nucleic acids. The labeling reagent in the kit reacts with the N7 of guanine to form a stable coordination complex, and the reaction is simple and fast—just heat denature DNA (5 minutes), add the label (react for 15 minutes), then purify.

ULYSIS® Nucleic Acid Labeling Specifications:
• Dye (Ex/Em): Alexa Fluor® 546 (555/570 nm)
• Labeling reaction is complete in as little as 15 minutes
• Available in several Alexa Fluor® dye colors


The Resulting Labeled Probe is useful for:
• Dot, northern, and Southern blots
• RNA and DNA in situ hybridization
• Multicolor fluorescence in situ hybridization (mFISH)
• Comparative genome hybridization (CGH)
• Microarray analysis

Reliable Labeling With the Universal Linkage System
We developed this series of ULYSIS® kits to enable rapid and simple coupling of our Alexa Fluor® dyes to purine bases in nucleic acid polymers. The method, the Universal Linkage System (ULS™), is based on the use of a platinum dye complex (owned by KREATECH Diagnostics) that forms a stable adduct with the N7 position of guanine and, to a lesser extent, adenine bases in DNA, RNA, PNA, and oligonucleotides. The result is a reliable nonenzymatic method for nucleic acid labeling.

Labeling is Fast and Easy
The labeling reaction typically takes only 15 minutes, and separation of the labeled nucleic acids from the unreacted ULS™ complex can be accomplished through the use of a simple spin-column procedure. DNA longer than ~1,000 base pairs requires a 10-minute DNase digestion before labeling, which both optimizes labeling and fragments the probe for efficient hybridization.

More Options for Nucleic Acid Labeling
To review various options for nucleic acid labeling, review Labeling Oligonucleotides and Nucleic Acids—Section 8.2 in the Molecular Probes® Handbook or view a list of our kits.

For Research Use Only. Not intended for human or animal therapeutic or diagnostic use.

SuperScript™ Plus Direct cDNA Labeling System with Alexa Fluor™-aha-dUTPs (Invitrogen™)

The SuperScript® Plus Direct cDNA Labeling System is a microarray labeling kit that combines the superior performance of SuperScript® III Reverse Transcriptase (RT) with the simplicity of direct labeling. In place of an enzyme spike-in, the streamlined protocol incorporates balanced sets of novel, array-optimized, nucleotides conjugated to Alexa Fluor® 555 and 647 dyes. This results in more reproducible array data with higher correlation coefficients than using standalone reagents. The SuperScript® Plus Direct cDNA Labeling System provides:

• Optimized, all-inclusive direct labeling with balanced aha-Alexa Fluor® nucleotides, enabling higher numbers of array positives
• Improved correlation coefficients for more accurate data (Figure 1)
• Low elution purification columns included for ease of use

In the SuperScript® Plus cDNA Labeling method, anchored oligo(dT) anneals to the mRNA template (Figure 2). SuperScript® III RT extends from the priming site, incorporating dUTP labeled with Alexa Fluor® dye directly to produce labeled cDNA. Template RNA is degraded by base hydrolysis. Free nucleotides and other contaminants are removed using low-elution volume purification columns before hybridization to the microarray.

Silencer™ siRNA Labeling Kit with Cy™3 dye (Invitrogen™)

For the labeling of siRNA with Cy™3. Includes sufficient reagents for labeling 65 µg of siRNA. Ambion® Labeled siRNA can be used to analyze siRNA subcellular localization, stability, and transfection efficiency. In addition, fluorescently labeled siRNA is particularly well-suited for use in double-label experiments (with a labeled antibody) to track cells that receive siRNA during transfection and to correlate transfection with down-regulation of the target protein. Research shows that labeling of siRNAs does not affect their biological function.

Accessory Products:
Also available is the Silencer® FAM™ siRNA Labeling Kit (SKU# AM1634).

Turbo Labeling™ Kit, Cy3 dye (Applied Biosystems™)

The Arcturus® Turbo Labeling™ Kits offer a proprietary, non-enzymatic technology optimized for the labeling of unmodified, amplified RNA (aRNA) for gene expression profiling. The unmodified aRNA is labeled post-amplification, thereby avoiding the need to incorporate modified nucleotides during RNA amplification. The use of unmodified nucleotides in the amplification process results in unmodified aRNA with higher yields and longer aRNA fragments, thus providing better representation of the mRNA transcript for downstream analysis (Figures 1 and 2).

Key product features:
• Simple – platform-independent aRNA labeling protocol typically takes less than 30 minutes
• Efficient – unlabeled aRNA can be preserved for downstream validation
• Effective – use of unmodified nucleotides permits exceptional representation of mRNA transcripts
Arcturus® Turbo Labeling™ Kits include reagents to support labeling of 12 samples with either Cy3*⁄Cy5 dyes (Figure 3) or with biotin for hybridization to cDNA or oligonucleotide arrays (Figure 4).

For Research Use Only. Not for use in diagnostics procedures.

Ulysis™ Alexa Fluor™ 594 Nucleic Acid Labeling Kit (Invitrogen™)

ULYSIS® Nucleic Acid Labeling Kits provide a unique method to attach a fluorescent dye to nucleic acids. The labeling reagent in the kit reacts with the N7 of guanine to form a stable coordination complex, and the reaction is simple and fast—just heat denature DNA (5 minutes), add the label (react for 15 minutes), then purify.

ULYSIS® Nucleic Acid Labeling Specifications:
• Dye (Ex/Em): Alexa Fluor® 594 (588/615 nm)
• Labeling reaction is complete in as little as 15 minutes
• Available in several Alexa Fluor® dye colors


The Resulting Labeled Probe is useful for:
• Dot, northern, and Southern blots
• RNA and DNA in situ hybridization
• Multicolor fluorescence in situ hybridization (mFISH)
• Comparative genome hybridization (CGH)
• Microarray analysis

Reliable Labeling With the Universal Linkage System
We developed this series of ULYSIS® kits to enable rapid and simple coupling of our Alexa Fluor® dyes to purine bases in nucleic acid polymers. The method, the Universal Linkage System (ULS™), is based on the use of a platinum dye complex (owned by KREATECH Diagnostics) that forms a stable adduct with the N7 position of guanine and, to a lesser extent, adenine bases in DNA, RNA, PNA, and oligonucleotides. The result is a reliable nonenzymatic method for nucleic acid labeling.

Labeling is Fast and Easy
The labeling reaction typically takes only 15 minutes, and separation of the labeled nucleic acids from the unreacted ULS™ complex can be accomplished through the use of a simple spin-column procedure. DNA longer than ~1,000 base pairs requires a 10-minute DNase digestion before labeling, which both optimizes labeling and fragments the probe for efficient hybridization.

More Options for Nucleic Acid Labeling
To review various options for nucleic acid labeling, review Labeling Oligonucleotides and Nucleic Acids—Section 8.2 in the Molecular Probes® Handbook or view a list of our kits.

For Research Use Only. Not intended for human or animal therapeutic or diagnostic use.

KinaseMax™ 5' End-Labeling Kit (Invitrogen™)

The Ambion® KinaseMax™ 5' End-Labeling Kit allows the efficient end-labeling of DNA or RNA to high-specific activity with T4 polynucleotide kinase and [gamma-32P] ATP, or quantitative phosphorylation of 5' ends using unlabeled ATP. Includes sufficient reagents for 30 reactions.

• Label oligonucleotide probes for nuclease protection assays and blot hybridizations
• Label primers for northerns and quantitative PCR
• Obtain up to 3-fold greater yields than with standard kinase buffers
• Reagents included for forward and dephosphorylation reactions

The kit includes a kinase reaction buffer that exceeds the performance of the standard forward reaction buffers recommended in "Molecular Cloning: A Laboratory Manual" (Sambrook et al., 1989) and "Current Protocols in Molecular Biology" (John Wiley & Sons, Inc. Ausubel, FM et al. editors, 1994). Crude 7000 Ci/mmol [gamma-32P]ATP is compatible with this kit. End-labeled probes are more stable than internally labeled probes and can routinely be used in assays for two to four weeks.

Rapid, Phenol-Free Phosphatase Removal Step
Inactivating the Calf Intestinal Phosphatase (CIP) after the dephosphorylation reaction is a time-consuming and cumbersome procedure that usually requires phenol extraction and ethanol precipitation typically resulting in sample loss. The KinaseMax™ Kit now includes a novel Phosphatase Removal Reagent for quick and complete removal of CIP. After the dephosphorylation step, the reagent is added to the reaction, incubated at room temperature for 2 minutes. The tube is then spun for a minute in the microfuge and the supernatant transferred to a new tube for the kinasing reaction.

Accessory Products:
The NucAway™ Spin Columns (SKU# AM10070) are available for rapid purification of end-labeled probes.

Nick Translation System (Invitrogen™)

The Nick Translation System is ideal for both radioactive and non-radioactive labeling of DNA. The Nick Translation System:

• Provides five pre-mixed nucleotide solutions for flexibility in labeled nucleotide incorporation
• Yields >108 cpm/µg control DNA using [ - 32 P]-dCTP
• Labels 1 µg of DNA in one reaction

Random Primers DNA Labeling System (Invitrogen™)

The Random Primers DNA Labeling System is ideal for radioactively labeling DNA, particularly fragments <1 kb. The Random Primers DNA Labeling System:
––Yields >109 cpm/µg control DNA using [ α-32 P]-dCTP
–25 ng of DNA in one reaction


Performance and Quality Testing: Incorporation of a radioactively labeled nucleotide is verified using control DNA in a random primers labeling reaction.

GeneChip™ DNA Labeling Reagent, 7.5 mM (Applied Biosystems™)

The GeneChip™ DNA Labeling Reagent is used with the Prokaryotic Target Labeling Assay for 3' expression studies with GeneChip prokaryotic Brand Arrays. The assay utilizes reverse transcriptase and random hexamer primers to produce DNA complementary to the RNA. The cDNA products are then fragmented by DNase I and labeled with terminal transferase and biotinylated GeneChip DNA Labeling Reagent at the 3' termini.

Functionally tested on GeneChip Brand Arrays, we recommend the Prokaryotic Target Labeling Assay and associated reagents for use in prokaryotic gene expression studies.

Prokaryotic Target Labeling Assay components include:
Control Oligo B2, 3nM
GeneChip DNA Labeling Reagent
GeneChip Poly-A RNA Control Kit

Detailed instructions for using this reagent are described in Section 3, Chapter 1 of the GeneChip Expression Analysis Technical Manual.

Each kit contains 1 vial of 60 µL of the GeneChip DNA Labeling Reagent, 7.5 mM, sufficient for 30 labeling reactions.

Related Links
GeneChip™ Wash Buffer A