Below are some of the common calculations we use when we work with oligonucleotides in our labs.
Making a 100 μM solution. To resuspend your oligonucleotides to 100 μM, simply multiply the number of nmoles by 10 to get the volume (in μL) of water or buffer to add. For example, assuming you have an oligonucleotide of 1 nmole final yield:
You can prove to yourself that this is the correct volume with the following equivalencies:
Combining (1) and (2),
Therefore, 1 nmol in 10 µL gives 100 µM.
Calculating nmoles. To calculate nmoles when only the OD (absorbance at 260 nm) and extinction coefficient are provided:
Calculating micrograms. To calculate micrograms (μg) of an oligo when nmoles and molecular weight (g/mol) are provided:
Calculating copy number. To calculate the number of copies of your DNA sequence when moles are provided:
Calculating concentration. To calculate the concentration (μM) when molecular weight (g/mol) and concentration in μg/μL are provided:
*Concentration equivalencies for μM = μmoles/L –OR– pmoles/μL (see math below):
You can access a free, online resuspension calculator under the Tools tab at www.idtdna.com, or go to www.idtdna.com/scitools.
Free online tools for oligonucleotide analysis and primer design
Explore IDT SciTools® Web Tools for free, online software for oligonucleotide analysis and for qPCR probe and assay design. The design engines for these tools use sophisticated formulas that, for example, take into account nearest-neighbor analysis to calculate Tm.
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.
ReadyMade Primers are stocked oligonucleotides for sample preparation, sequencing, and gene expression analysis of common genes, including 16S rRNA primers. Identity is confirmed by mass spectrometry and purity is established by capillary electrophoresis. Because these primers are prestocked, they can be shipped as soon as they are ordered and, therefore, provide a fast turnaround time.
Author: Stephanie Youtsey is a Technical Support Representative at IDT.
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