Input interpretation
oligonucleotide melting temperature
Input values
oligonucleotide sequence | ATCGGTAACGATTACATTC (genome sequence) monovalent salt ion concentration | 0.05 mol/L (moles per liter) magnesium ion concentration | 2.5 mmol/L (millimoles per liter) primer concentration | 0.4 µmol/L (micromoles per liter)
Result
oligonucleotide melting temperature | 58.7 °C (degrees Celsius) (based on Wetmur-Sninsky nearest-neighbor base interaction model)
Equation
![T_m = T_t + T_s - 269.3 | T_t = (T^° ΔH^°)/(ΔH^° - ΔG^° + R T^° log(C)) T_s = 16.6 log(10, [salt]/(1 + 0.7 [salt])) | [salt] = [K^+] + 4 sqrt([Mg^(2+)]) | T_m | melting temperature T_t | thermodynamic term T_s | salt-dependent term T^° | STP temperature (25°C) ΔH^° | base-stacking enthalpy ΔG^° | base-stacking free energy R | molar gas constant C | primer concentration [salt] | effective salt concentration [K^+] | monovalent salt concentration [Mg^(2+)] | magnesium ion concentration](../image_source/3842f5801461ad5ea7be667411618bcc.png)
T_m = T_t + T_s - 269.3 | T_t = (T^° ΔH^°)/(ΔH^° - ΔG^° + R T^° log(C)) T_s = 16.6 log(10, [salt]/(1 + 0.7 [salt])) | [salt] = [K^+] + 4 sqrt([Mg^(2+)]) | T_m | melting temperature T_t | thermodynamic term T_s | salt-dependent term T^° | STP temperature (25°C) ΔH^° | base-stacking enthalpy ΔG^° | base-stacking free energy R | molar gas constant C | primer concentration [salt] | effective salt concentration [K^+] | monovalent salt concentration [Mg^(2+)] | magnesium ion concentration
Salt concentration dependence
Salt concentration dependence
Units
Length
19 base pairs
Amino acid sequence
(5'-3' frame 1) | AUC | GGU | AAC | GAU | UAC | AUU ↓ | ↓ | ↓ | ↓ | ↓ | ↓ I | G | N | D | Y | I (5'-3' frame 2) | UCG | GUA | ACG | AUU | ACA | UUC ↓ | ↓ | ↓ | ↓ | ↓ | ↓ S | V | T | I | T | F (5'-3' frame 3) | CGG | UAA | CGA | UUA | CAU ↓ | ↓ | ↓ | ↓ | ↓ R | - | R | L | H (3'-5' frame 1) | GAA | UGU | AAU | CGU | UAC | CGA ↓ | ↓ | ↓ | ↓ | ↓ | ↓ E | C | N | R | Y | R (3'-5' frame 2) | AAU | GUA | AUC | GUU | ACC | GAU ↓ | ↓ | ↓ | ↓ | ↓ | ↓ N | V | I | V | T | D (3'-5' frame 3) | AUG | UAA | UCG | UUA | CCG ↓ | ↓ | ↓ | ↓ | ↓ M | - | S | L | P