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Primers on ZAGENO

16S rRNA For Integrated DNA technologies
Nucleotide Type / Quantity / Applicable Processes /
From $ 10.00 (10 µg)
Sizes 1 (10 µg)
Catalog IDs 51-01-19-06
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TaqMan™ Copy Number Reference Assay, human, RNase P Applied Biosystems
Nucleotide Type / Quantity / Applicable Processes /
From $ 113.00 (750 Reactions)
Sizes 1 (750 Reactions)
Catalog IDs 4403326
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SNORD48 primer set Exiqon
Nucleotide Type / Quantity / Applicable Processes /
From $ 144.44 (200 Reactions)
Sizes 1 (200 Reactions)
Catalog IDs 203903
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Rat Real-Time PCR Primer Sets RealTimePrimers
Nucleotide Type Oligonucleotide Quantity 40 µl Applicable Processes Quantification, Real-time PCR
From $ 29.95 (40 µl)
Sizes 1 (40 µl)
Catalog IDs CRPS-1
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hsa-let-7g-5p LNA™ PCR primer set, UniRT Exiqon
Nucleotide Type Oligonucleotide Quantity / Applicable Processes /
From $ 114.44 (1 Sets)
Sizes 1 (1 Sets)
Catalog IDs 204565
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hsa-miR-103a-3p LNA™ PCR primer set, UniRT Exiqon
Nucleotide Type / Quantity / Applicable Processes /
From $ 114.44 (200 Reactions)
Sizes 1 (200 Reactions)
Catalog IDs 204063
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Maize SSR Primer Set SKU : M4193 Sigma-Aldrich
From $ 1,020.00 (1 Set)
Sizes 1 (1 Set)
Catalog IDs M4193-1SET
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hsa-miR-423-3p LNA™ PCR primer set, UniRT Exiqon
Nucleotide Type / Quantity / Applicable Processes /
From $ 144.44 (200 Reactions)
Sizes 1 (200 Reactions)
Catalog IDs 204488
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AFM primer SKU: NBP1-71653 Novus Biologicals
From $ 49.00 (1 Pack)
Sizes 2 (1 Pack)
Catalog IDs NBP1-71653, NBP1-71653SS
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Human Real-Time PCR Primer Sets RealTimePrimers
Nucleotide Type Oligonucleotide Quantity 40 µl Applicable Processes Real-time PCR
From $ 24.95 (40 µl)
Sizes 1 (40 µl)
Catalog IDs CHPS-1
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Oligo(dT)12-18 Primer Invitrogen
Nucleotide Type / Quantity / Applicable Processes /
From $ 80.25 (25 µg)
Sizes 1 (25 µg)
Catalog IDs 18418012
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MAGnify SAT2 Primers Applied Biosystems
Nucleotide Type Oligonucleotide Quantity 100 µl Applicable Processes Real-time PCR
From $ 61.75 (100 µl)
Sizes 1 (100 µl)
Catalog IDs 492026
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Primer Applications

Primers are short (normally 18 to 22 base pairs) DNA or RNA oligonucleotides which are used as starting points for the replication of DNA or RNA sequences. They are required for various techniques like:

• Quantification of mRNA Expression by Real-Time Polymerase chain reaction (qPCR)

• Replication of specific DNA sequences by End-Point PCR

• cDNA synthesis by reverse transcription of mRNA

• DNA or RNA sequencing including Next-Generation sequencing

• Generation of DNA probes for in-situ hybridization, Southern blotting or Northern blotting

Problems in the lab? Find the solutions in our Knowledge and Troubleshooting sections. Alternatively, our Community of experienced researchers can help! Still confused? See How ZAGENO Works.

In Vivo and In Vitro Techniques

In vivo, primers are essential for the replication of DNA during the S phase. The primase builds short RNA primers along the lagging strand which are then used as starting points for the DNA polymerase.

For in vitro techniques primers are often designed with a known sequence suitable for the amplification of the desired DNA sequence by PCR. The synthesis of oligonucleotides is a chemical reaction where nucleotides are coupled step by step in the sequence you want. Oligonucleotides are often isolated by high-performance liquid chromatography (HPLC) to enhance their purity.

Primer Design

When designing primers, one should keep secondary structures and the GC content in mind. Secondary structures might prevent primers from binding to its target sequence. The GC content is responsible for the temperature that is needed for the annealing of the primers. For techniques that use two different primers like all kinds of PCR, you should use primers with equal or similar melting temperatures. To keep track of those issues, you can use one of the freely available tools like Primer3Plus that help you to design your primers.

For problems with your PCR check our troubleshooting guides for Real-Time PCR or [End-Point PCR]

For cDNA synthesis, you have the choice between oligo-dT and random hexamer primers. The former ones have the advantage to solely synthesize mRNA with polyA tails, whereas the latter ones usually result in a higher amount of synthesized cDNA. In the case you want to perform a reverse transcription with RNA from prokaryotes, where no polyA tails are present, you should use random hexamer primers.

If you have problems regarding your cDNA synthesis, you should have a look at our troubleshooting section for cDNA synthesis.