There is often confusion surrounding the meanings of “synthesis scale” and “synthesis yield” in custom oligonucleotide manufacturing. Simply put, scale refers to the amount of starting material used to synthesize your oligonucleotide. It is composed solely of the 3‘-most nucleotide of a sequence attached to a solid support and housed within the column used to make the oligonucleotide.
Yield, on the other hand, refers to the amount of final product recovered after all of the synthesis and purification steps associated with the oligonucleotide have been completed. As no chemical reaction, even the coupling of simple DNA bases, is 100% efficient, the final deliverable amount of oligonucleotide is never equal to the starting amount for synthesis. Modifications, secondary structures, and purification services further affect the final delivery amount (yield).
IDT offers guaranteed yields based on all of these factors that define the minimum amount of oligonucleotide you will receive for a given construct. Once you have selected the synthesis scale, modifications, and purification services, check your shopping cart for the IDT minimum yield guarantee for that oligonucleotide order.
Product focus—Oligo, modifications, dsDNA fragments
Custom Oligonucleotides and primers
You can order up to 1 µmol desalted, custom synthesized DNA oligonucleotides and they will be shipped to you the next business day (larger scales are shipped within 5 business days). You can also specify whether to receive them dried down or hydrated, and whether you want them already annealed. Every IDT oligonucleotide you order is deprotected and desalted to remove small molecule impurities. Your oligos are quantified twice by UV spectrophotometry to provide an accurate measure of yield. Standard oligos are also assessed by mass spectrometry for quality you can count on.
Learn more or order now.
Review a list of the common modifications IDT can add to oligonucleotides here. Not finding a modification you need on the IDT website? IDT will consider any modification you need. Just send your request to firstname.lastname@example.org.
Custom dsDNA Fragments
Rather than annealing oligonucleotides to obtain dsDNA fragments, when your fragment size is 125 bp or longer, it might make more sense to order gBlocks® Gene Fragments. gBlocks Gene Fragments are double-stranded, sequence-verified, DNA genomic blocks, 125–3000 bp in length, that can be shipped in 2–5 working days for affordable and easy gene construction or modification. These dsDNA fragments have been used in a wide range of applications including CRISPR-mediated genome editing, antibody research, codon optimization, mutagenesis, and aptamer expression. They can also be used for generating qPCR standards.
Learn more about gBlocks Gene Fragments at www.idtdna.com/gblocks.
My oligos have arrived: Now what?—Review these recommendations for resuspension and storage of newly received oligonucleotides.
Understanding melting temperature (Tm)—Read this advice from our own thermodynamics specialist, Dr Richard Owczarzy, on the effects of melting temperature (Tm) on hybridization. He provides considerations for better oligo and PCR/qPCR assay design, including oligo concentration, salt, and base pairing mismatch positioning.
Calculations: Converting from nanograms to copy number—This calculation is often used to create a qPCR standard curve. Let this free, online tool do it for you.
You can also browse our DECODED Online newsletter for additional application reviews, lab tips, and citation summaries to facilitate your research.
Author: Ellen Prediger, PhD, is Director of Scientific Communication at IDT.
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