Reporter groups on oligonucleotides


Fluorescent custom oligonucleotides

  • More than 150 labels to choose from

  • Now available! Click-Chemistry allowing completely new dye combinations not available before and so far unreachable labeling densities

  • New generation of ultra-photostable Eterneon™ dyes with Stokes shift up to 180 nm

  • Licensed supplier of oligonucleotides labeled with dyes patented by Molecular Probes (owned by Invitrogen Corp.) or GE Healthcare Biosciences Corp.

  • Alternative dyes from Evotec OAI, Dyomics, Luminartis and Atto-Tec covering the entire spectrum from ultraviolet to infrared, as well as BBQ and BHQ

  • Excellent, high quality, competitive prices including HPLC purification and fast delivery

  • Customer applications and a list of references published by IBA oligo users



Don’t waste time by labeling oligos yourself!
You can also send us your activated dye and we do the labeling for you. Highly efficient and fast. Contact us for a quote.


· Dyes available for oligonucleotide labeling
· Quality of dye labeled oligonucleotides
· Double and multiple labeling
· Possible dye combinations
· Real-time PCR Probes
· FRET probes

Fluorescently labeled oligonucleotides are used for:

  • Non-radioactive sequencing
  • Mutation analysis
  • Primer extension analysis
  • Gene scan analysis
  • Fragment analysis
  • Multiplex PCR
  • Quantitative PCR
  • Online monitoring of PCR (Real-time PCR)
  • FCS-Spectroscopy
  • In situ hybridization
  • Screening
  • Measuring ribozyme kinetics

IBA offers a broad spectrum of dyes for all of these applications.
There are different possibilities for labeling an oligonucleotide:

  • All of our dyes can be attached postsynthetically to the 5'- terminus of an oligonucleotide via an amino- or thiol-linker with a 6-Carbon spacer arm.
  • Another possibility for labeling an oligonucleotide at the 5'- terminus is to couple the dye directly during synthesis via its phosphoramidite. This method is available for Cy3TM, Cy3.5TM, Cy5TM, Cy5.5TM, Fluorescein, HEX, TET and Dabcyl.
  • Postsynthetic labeling of oligonucleotides at internal sites of the sequence is possible by substituting any thymidine with 5-C6-Amino-2'-deoxythymidine. All dyes available for 5'- labeling can also be attached internally.
  • It is also possible to label the 3'- end of oligonucleotides postsynthetically via an amino link. This method is available for all dyes. For the 3'- labeling with Fluorescein and Dabcyl IBA NAPS has special solid supports [CPGs] with the dyes already attached. This is very useful for high quality production of double labeled probes.

top Quality of dye labeled oligonucleotides

  • Double HPLC purification included
  • Excessive dye removed
  • Unlabeled oligonucleotides removed

The delivery amount is 5 nmol* with the 0.05 µmol scale, 25* nmol with the 0.2 µmol* scale, and 100* nmol for the 1.0 µmol scale.
* for oligonucleotides shorter 40 bases

All dye labeled oligonucleotides are double HPLC purified (with the exception of the directly coupled dyes where no excessive dye must be eliminated). Failure sequences are removed during the first HPLC purification. The second HPLC is performed to remove unlabeled oligonucleotides and excessive dye. As a result only labeled oligonucleotides are obtained.


top Double and multiple labeling

Labeling oligonucleotides with multiple dyes is also possible. This is used in Fluorescence Resonance Energy Transfer (FRET) applications.(1-3)
In theory, resonance energy transfer between two fluorophores will occur only if the emission spectrum of the donor overlaps the excitation spectrum of the acceptor. It was discovered, however, that "non- overlapping FRET pairs" can also be used, such as FAM/ Cy5TM or a wide range of fluorophores with Dabcyl as quencher. The fluorophores have to be able to reach close vicinity to each other. The excited fluorophore transfers the energy to the acceptor (quencher) without emission of a photon. For most assays fluorescein is used as a donor. Typical acceptor dyes are: Fluorescein, TAMRA, ROX, Cy5TM, Carboxy-rhodamine-6G, Dabcyl and QSY-7TM.
Reference


top Possible dye combinations

IBA offers a great variety of oligonucleotides with different labels and their combinations. For example: 5'-Fluorescein, 5'-HEX, 5'- Cy3TM, 5'- Cy3.5TM, 5'- Cy5TM, 5'- Cy5.5TM, 5'-TET, 3'-Dabcyl, and 3'-Fluorescein can be combined with any of the available dyes in varied positions. For double labelings with dyes that are not available as amidites labeling via thiol-reactive compounds is possible.


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