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Quasar® 670 C6 T amidite is used for the 5' or internal labeling of synthetic oligonucleotides for a wide array of applications including dual labeled fluorogenic probes for real time PCR. The Quasar 670 moiety is coupled to a thymine for addition to synthetic oligonucleotides. Quasar 670 dye is an indocarbocyanine that fluoresces in the red region of the visible spectrum and can be effectively quenched by BHQ®-2 or BHQ-3 dye. It is also a direct replacement for the Cy™5 dye.

Properties:

  • Formula:

    C81H102F6N8O10P2

  • Molecular Weight:

    1523.66

  • Appearance:

    blue solid

  • Absorption Maximum (Lambda Max):

    644

  • Extinction Coefficient at Lambda max:

    176000

  • Extinction Coefficient at 260 nm:

    2640

  • Fluorescence Maximum:

    670

Spectral properties measured in PCR buffer as internal labeled poly(T) oligonucleotide.

Product usage:

  • Synthesis conditions:

    Due to the mild cleavage and deprotection conditions, we recommend using fast deprotecting amidites. Prior to dilution ensure that all product is at the bottom of the vial. Dilute to the recommended concentration and mix thoroughly in sealed vial to ensure that all contents are dissolved. For optimal coupling efficiency, we recommend treating the amidite solution with 3-4 Å activated molecular sieves (10% v/v).

  • Dilution:

    100 µmol/mL

  • Deprotection conditions:

    Oligonucleotides labeled with Quasar 670 C6 T amidite may be deprotected using concentrated NH4OH, although some degradation can occur. Deprotect the Quasar 670 labeled oligo in concentrated NH4OH for 8 hours at 25 °C or for 1 hour at 60 °C. The use of methylamine should be avoided.

  • Quasar 670 C6 T amidite is light sensitive material. Prolonged exposure to light may cause photo bleaching. This product is susceptible to oxidation when exposed to air or stored undessicated.
    Image of cleaved and deprotected structure:
    102275c.gif

  • The mass this product adds after conjugation and work-up (the additional mass seen by mass spectrometry) is:

    938.08

Storage and handling:

  • Shipping conditions:

    Cold

  • Storage conditions:

    -15 to -30 °C

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