Invitrogen Custom DNA Primers are offered with several options for primer purification. Which one you should choose depends on your application. Here are some details on the options that are typically available:
Desalted--this is our standard purification procedure. The primer will be gas-phase deprotected and normal-phase desalted. Organic products are removed with 10% acetonitrile/90% water wash, and the products are then eluted under aqueous conditions. The smallest oligo we synthesize at this purification is 5 bases. Desalting removes salt, but not failure sequences. This method is sufficient for standard PCR, RT-PCR, cDNA synthesis, and sequencing reactions.
Cartridge Purification--this is based on reversed-phase chromatography to provide full-length sequences. The majority of the n-1, n-2, n-3, etc. species will be removed for oligos less than 35 bases. The smallest oligo we synthesize at this purification is 7 bases. Cartridge Purification is recommended for PCR with primers that have critical 5' sequences (RE sites, promoters), site-directed mutagenesis, first-strand cDNA synthesis for generation of libraries, gel shift assays, and production of cloning adapters.
HPLC (high-pressure liquid chromatography)--HPLC is a reversed-phase chromatography method similar to that used in cartridge purification. This process removes failure sequences and unincorporated labels. This is offered for oligos up to 50 bases long. HPLC is recommended for antisense work.
PAGE Purification--a denaturing polyacrylamide gel is used to purify the full-length primers from ALL types of n-1, n-2, etc. species of oligos. Oligos are purified by electroelution from the acrylamide gel and then run on a desalting column. These primers are not phenol extracted. PAGE purification can be used for any length of oligonucleotides. Typical yields for PAGE purified primers are not as high as when purified by other methods, but the product is highly pure. This is recommended for GeneTrapper screening. For more information, refer to the Oligos pages under Products & Services on our website.
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