Xylene cyanol

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Xylene cyanol
Xylene cyanol.png
CAS number 2650-17-1 N
ChemSpider 21106494 YesY
Jmol-3D images Image 1
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)
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Infobox references

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

Migration speed[edit]

In 1% agarose gels, xylene cyanol typically migrates at about the same rate as a 4000 base pair DNA fragment[citation needed]. Xylene cyanol or tracking dye 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 rate of 25 base oligonucleotide. Typically 0.005-0.03% of final concentration of xylene cyanol is used.


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


External links[edit]