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Oligo Modifications List | Oligo Modifications Reference Category
Modification : HEX
Reference Catalog Number 26-6432
Category Fluorescent Dyes
Modification Code HEX
5 Prime Y
3 Prime Y
Internal N
Molecular Weight (mw) 744.13
Extinction Coeficient (ec) 31.58
Technical Info (pdf) PS26-6432-02.pdf
Abvsorbance MAX 535
Emission MAX 556
Catalog NoScalePrice
26-6432-0550 nmol$63.00
26-6432-02200 nmol$63.00
26-6432-011 umol$81.90
26-6432-032 umol$122.85
26-6432-1010 umol$655.20
26-6432-1515 umol$819.00

Discounts are available for HEX!
Modification* Discount Price Structure
1 site/order List price
2 sites/order 10% discount
3 sites/order 20% discount
4 sites/order 30% discount
5-9 sites/order 50% discount
10+ sites/order 60% discount
*Exceptions apply

Hexachloro-fluorescein (HEX) is hexachlorinated version of the fluorescent dye fluorescein, and is used for labeling oligonucleotides at either the 5’- or 3’-end. HEX has an absorbance maximum of 535 nm and an emission maximum of 556 nm. HEX can be used in real-time PCR applications as a reporter moiety in TaqMan probes (1), Scorpion primers (2) and Molecular Beacons (3). For such probes, HEX is most commonly paired with the dark quencher BHQ-1, as the two have good spectral overlap.

HEX also can be used to label DNA oligos for use as hybridization probes in a variety of in vivo and in vitro research or diagnostic applications, as well as for structure-function studies of DNA, RNA, and protein-oligonucleotide complexes. Oligos labeled with HEX at the 5’-end can be used as PCR and DNA sequencing primers to generate fluorescently-labeled PCR, sequencing or genetic analysis (AFLP or microsatellite) products. NOTE: If HEX is on the 3’-end of the oligo, it cannot be used as a primer in PCR-based applications.

References
1. Livak, K.J., Flood, S.J.A., Marmaro, J., Giusti, W., Deetz, K. Oligonucleotides with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization.PCR Methods Appl. (1995), 4: 1-6.
2. Thelwell, N., Millington, S., Solinas, A., Booth, J., Brown, T. Mode of action and application of Scorpion primers to mutation detection. Nucleic Acids Res. (2000), 28: 3752-3761.
3. Tyagi, S., Kramer, F.R. Molecular beacons: probes that fluoresce upon hybridization. Nat. Biotechnol. (1996), 14: 303-308.
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