Xylene cyanol

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Xylene cyanol
Xylene cyanol.png
Identifiers
CAS number 2650-17-1 N
ChemSpider 21106494 YesY
Jmol-3D images Image 1
Properties
Molecular formula C25H27N2NaO6S2
Molar mass 538.61 g/mol
Except where noted otherwise, data are given for materials in their standard state (at 25 °C (77 °F), 100 kPa)
 N (verify) (what is: YesY/N?)
Infobox references

Xylene cyanol can be used as a color marker, or tracking dye, to monitor the process of agarose gel electrophoresis and polyacrylamide gel electrophoresis. Bromophenol blue and orange G can also be used for this purpose.

Once mixed with the sample, concentration of xylene cyanol is typically about 0.005% to 0.03%.

Migration speed[edit]

In 1% agarose gels, xylene cyanol migrates at about the same rate as a 4 to 5 kilobase pair DNA fragment [1] (although this depends on the buffer used). Xylene cyanol on a 6% polyacrylamide gel migrates at the speed of a 140 base pair DNA fragment. On 20% denaturating (7 M urea) polyacrylamide gel electrophoresis (PAGE), xylene cyanol migrates at about the rate of 25 bases oligonucleotide.

Conjugation[edit]

Due to its large number of double bonds separated by single bonds, the molecule is said to be highly conjugated.

References[edit]

  1. ^ Lela Buckingham & Maribeth L. Flaws. Molecular Diagnostics.- Fundamentals, Methods, & Clinical Applications. F.A. Davis Company, 2007, p. 91

External links[edit]