The annealing temperature gradient should start with temperature 6–10 ☌ lower than annealing temperature generated by the calculator and increased up to the extension temperature ( two-step PCR). If necessary, use a temperature gradient to further optimize and empirically determine the ideal annealing temperature for each template-primer pair combination. T m values, annealing temperature, and other data are automatically generated. To use this calculator select your DNA polymerase, type in or paste your primer sequences, and provide your final primer concentration. The parameters were adjusted on a set of primers seeking to maximize specificity and retain high yields. The modified Allawi & SantaLucia's thermodynamics method is used for T m and annealing temperature calculation of reactions with Platinum SuperFi, Phusion and Phire DNA Polymerases. The calculator also calculates the primer length, percentage of GC content, molecular weight, and extinction coefficient. The calculator calculates recommended T m (melting temperature) of primers and PCR annealing temperature based on the primer pair sequence, primer concentration, and DNA polymerase used in PCR.
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