SAFC Supply Solutions - Proligo® Reagents Catalog

SAFC International Sites Proligo Reagents ®
Global E-mail: safcglobal@sial.com Nucleic acid solutions for genomic development

Phosphoramidites / Modifiers / Supports / Liquid Reagents
Argentina Germany Malaysia South Africa
Tel: +54 11 4556 1472 Tel: +49 (0)89 6513 1920 Tel: +60 3 5635 3321 Free Tel: 0800 1100 75
Fax: +54 11 4552 1698 Fax: +49 (0)89 6513 1919 Fax: +60 3 5635 4116 Free Fax: 0800 1100 79
E-Mail: info-argentina@sial.com E-Mail: deusafc@sial.com E-Mail: sam@sial.com Tel: +27 11 979 1188
Fax: +27 11 979 1119
Australia Greece Mexico E-Mail: rsa@sial.com
Free Tel: 1800 800 097 Tel: +30 2 10 994 8010 Free Tel: 01 800 007 5300
Free Fax: 1800 800 096 Fax: +30 2 10 994 3831 Free Fax: 01 800 712 9920 Spain
Tel: +61 (0)2 9841 0555 E-Mail: grcustsv@sial.com E-Mail: mexico@sial.com Tel: +34 91 657 2073
Fax: +61 (0)2 9841 0500 Fax: +34 91 490 5785
E-Mail: auscustserv@sial.com Hungary The Netherlands E-Mail: espsafc@sial.com
Tel: +36 (06) 1 235 9066 Tel: +31 (0)78 620 5414
Austria Fax: +36 (06) 1 235 9050 Fax: +31 (0)78 620 5424 Sweden
Tel: +43 (0)1 605 81 91 Ingyenes zöldtelefon: 06 80 355 355 Free Tel: 0800 022 9092 Tel: +46 (0)8 742 4200
Fax: +43 (0)1 605 81 20 Ingyenes zöld fax: 06 80 344 344 Free Fax: 0800 022 9093 Fax: +46 (0)8 742 4243
E-Mail: sigma@sigma.co.at E-Mail: info@sigma.sial.hu E-Mail: nldsaf@sial.com E-Mail: sweorder@sial.com
Belgium India New Zealand Switzerland

Free Tel: 0800 99560 Bangalore Free Tel: 0800 936 666 Swiss Free Call: 0800 80 00 80
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Tel: +31 78 6205414 Fax: +91 80 5112 7473 Fax: +41 (0) 81 755 27 70
Fax: +31 78 6205424 New Delhi Norway E-Mail: cheorders@sial.com
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Fax: +91 11 2616 5611 Fax: +47 (0)23 176 010 United Kingdom
Brazil Mumbai E-Mail: nordicsafc@sial.com Poole
Tel: +55 11 3732 3100 Tel: +91 22 2570 2364 Tel: +44 (0)1202 712 305
Fax: +55 11 3733 5151 Fax: +91 22 2579 7589 Poland Fax: +44 (0)1202 712 235
E-Mail: brasafc@sial.com Hyderabad Tel: +48 61 829 0100 Gillingham
Tel: +91 40 5531 5488 Fax: +48 61 829 0120 Tel: +44 (0)1202 712305
Canada Fax: +91 40 5531 5466 E-Mail: plorsafc@sial.com Fax: +44 (0)1202 712235
Free Tel: 1800 565 1400 E-Mail: india@sial.com Manchester
Free Fax: 1800 265 3858 Portugal Tel: +44 (0)161 232 5500
Tel: +1 905 829 9500 Ireland Tel: +351 21 924 25 55 Fax: +44 (0)161 232 5501
Fax: +1 905 829 9292 Tel: +353 (0)1 404 1903 Fax: +351 21 924 26 10 E-Mail: safcuk@sial.com
E-Mail: canada@sial.com Fax: +353 (0)1 404 1911 Free Tel: 800 20 21 80
E-Mail: safcei@sial.com Free Fax: 800 20 21 78 United States
China E-Mail: espsafc@sial.com Toll Free: 800 244 1173
Tel: +86 21 6386 2766 Israel Call Collect: 314 534 4900
Fax: +86 21 6386 3966 Free Tel: +1 800 70 2222 Russia Toll Free Fax: 800 368 4661
E-Mail: china@sial.com Tel: +972 8 948 4100 Tel: +7 495 975 3321 Fax: 314 652 0000
Fax: +972 8 948 4200 Fax: +7 495 975 4792 E-Mail: safcglobal@sial.com
Czech Republic E-Mail: isrsafc@sial.com E-Mail: russafc@sial.com
Tel: +420 246 003 200 SAFC Proligo® Reagents
Fax: +420 246 003 291 Italy Singapore Georg-Heyken Str.14
E-Mail: czeorders@sial.com Telefono: +39 02 3341 7350 Tel: +65 6779 1200 21147 Hamburg
Fax: +39 02 3341 7201 Fax: +65 6779 1822 Germany
Denmark E-Mail: itasafc@sial.com E-Mail: sapl@sial.com Tel: +49 407 970 2250
Tel: +45 43 565 900 Fax: +49 407 970 2100
Fax: +45 43 565 905 Japan E-Mail: safcproligoreagents@sial.com
E-Mail: nordicsafc@sial.com Tel: +81 (0)3 5796 7340
Fax: +81 (0)3 5796 7345
KMI
Finland E-Mail: safcjp@sial.com 04353
Tel: +358 9 350 9250 0408
Fax: +358 9 350 92555 Korea SAFC Supply Solutions®, Pharmadite®, SAFC Proligo® Reagents, and
Activator 42® are a registered trademarks of Sigma-Aldrich
E-Mail: finorder@sial.com Tel: +82 (0)31 329 9000
Biotechnology L.P. and Sigma-Aldrich Co.
Fax: +82 (0)31 329 9090
Millipore® and CPG® are U.S. registered trademarks owned by Millipore
France E-Mail: hcjoo@sial.com Corporation or an affiliated company.
Tel: +33 (0)4 74 82 2882 Perkin-Elmer® and Perseptive Biosystems® are registered trademarks of
Fax: +33 (0)4 74 82 2890 the Perkin-Elmer Corporation, PerSeptive Biosystems, Inc. or other
subsidiaries in the U.S. and certain other countries.
E-Mail: fraadvsafc@sial.com
ABI® is a registered trademark of Applera Corporation or its subsidiaries.
Expedite™ is a trademark of Applera Corporation or its subsidiaries.
Welcome to the future of genomics
PolyGen® is a registered trademark of PolyGen GmbH.
*LNA® / Locked Nucleic Acid® is a registered trademark of
Exiqon A/S, Vedbaek, Denmark.
Cy trademarks are licensed through Molecular Probes which is now
fully owned by Invitrogen.
All other trademarks are the property of their respective owners.
Reproduction forbidden without permission.
LNA oligonucleotides and phosphoramidites are sold under license
from Exiqon A/S for research use only. Not for resale or for therapeutic
use or use in humans. Specifications are subject to change.
© 2008 SAFC All rights reserved

Printed in USA
www.safcsupplysolutions.com www.safcsupplysolutions.com
To be
inspired
Strength In Our History SAFC Supply Solutions® meet us at the

yearly TIDES
show (US)
Our beginnings are aligned with the
infancy of nucleic acid synthesis
technologies. In 1981, Professor Hubert
Köster founded Biosyntech GmbH,
incorporating proprietary nucleic acid
synthesis technologies in Hamburg,
Germany. Since that time, the entire
Welcome to the
industry has undergone numerous
transformations, and our nucleic acid
chemistry expertise and manufacturing
capabilities have remained at its forefront.
future of genomics
Today, Proligo® Reagents from SAFC
Supply Solutions® are recognized the
world over for their quality. Our history
of providing DNA and RNA synthesis
reagents and supporting services is one
customers have depended upon in their
oglionucleotide programs for over 27 years.
1981 Biosyntech GmbH proprietary

nucleic acid synthesis
technologies founded by
Professor Hubert Köster
1986 Biosyntech acquired by Milligen,

a division of Millipore®, Inc.
1991 Transfer of Biosearch chemical

operations from California to
Hamburg, Germany
1993 First ISO 9001 biotechnology

company certified in Germany
1994 Integration into PerSeptive

Biosytems®, Inc.
To place an order or inquire about 1995 Acquisition of Controlled Pore

custom manufacturing contact your Glass (CPG®) technology
local SAFC representative or visit
www.safcsupplysolutions.com 1996 Manufacturing facilities
improved to state-of-the-art
1998 PerSeptive Biosystems®, Inc.

merges with Perkin-Elmer®
Corporation SAFC Supply Solutions® recognizes that, as
products move through pharmaceutical and
diagnostic development, technologies and
1998 Proligo® Reagents founded by
compliance requirements evolve.
SKW and NeXstar
With over 25 years of experience in our Hamburg
2002 Proligo® Reagents multi-ton manufacturing facility, we bring you Proligo®
Reagents, a dedicated and comprehensive line of
manufacturing capabilities
raw materials for oligonucleotides synthesis
introduced including DNA and RNA Pharmadites, standard
and modified Amidites, Linkers & Modifiers,
2005 Proligo® Reagents purchased by Supports & Solvents.
Sigma-Aldrich, Inc. for its SAFC® Contact your local representative to learn more
custom manufacturing group about our technical and quality package.
www.safcsupplysolutions.com
Table of Contents
SAFC Supply Solutions® Proligo® Reagents . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2
Manufacturing, Purification & Filling ..................................2
Custom Manufacturing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3
Compliance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4
Quality Control . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4
Quality Assurance . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4
Packaging . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5
Products . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7
Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8
Pharmadite® for Pharmaceutical Applications . . . . . . . . . . . . . . . . . . . . . . . . . 8
DNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
Fast Deprotection Chemistries . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12
RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
2'O-Methyl RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22
DMT-2'Fluoro Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26
Labels and Modifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
Non-Standard Nucleosides . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35
Phosphate-ON Phosphoramidite . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38
NPPOC Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
Solid Supports . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 42
Controlled Pore Glass and Columns — CPG Free Flow . . . . . . . . . . . . . . . . 42
Columns for Synthesizers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 43
Amino-ON CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 45
Universal CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 47
Liquid Reagents . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 49
Activator 42® . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 52
Product List . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 53
1
SAFC Supply Solutions®
Proligo® Reagents
The Industry Leader in Manufacturing, Purification

Manufacturing Amidites & Filling
and Pharmidites®
Manufacturing
A world-class provider of high-purity, high-yield
Phosphoramidites and controlled pore glass (CPG)
nucleic acid solutions, SAFC Supply Solutions’ solid supports are produced in our state-of-the-art
Proligo® Reagents brings revolutionary Hamburg, Germany manufacturing facilities. To serve
innovation and the reliability of outstanding the global market, standard formulation and custom
requests for liquid formulations, solvents and reagents
regulatory compliance to diagnostics and
are produced in explosion-proof environments at the
pharmaceutical customers worldwide involved Hamburg site and at our Sheboygan, Wisconsin
in genetic development programs. manufacturing facility in the U.S.
Our dedicated experts have extensive experience Because we are a leading manufacturer, SAFC
manufacturing key high performance raw materials Supply Solutions has the flexibility to supply a wide
for DNA and RNA oglionucleotide synthesis for variety of high-volume standard products as well
diagnostics and pharmaceutical applications. As the as manufacture small-scale custom specialties.
largest manufacturer of amidites and pharmidites in Dedicated labs and extensive process
the industry, Proligo Reagents’ extensive inventory of development and scale-up expertise compliments
standard building blocks and custom manufacturing our multiple production suites while our large
capabilities can meet the most demanding capacity ensures quick response time to satisfy
requirements. Our product range begins with high- ever-changing market demands.
quality starting materials and includes: Flexible production comes from numerous mid-
• HPLC-purified DNA & RNA phosphoramidite size reactor trains (20-200L), glass-lined reactors to
monomers to ensure consistent quality 1,000L, temperature ranges from -30ºC to 160ºC,
and an integrated solvent delivery system.
• Solvents (manufactured in the U.S. and in
Hamburg, Germany) that increase yield
through extremely low controlled water content HPLC Purification
and unique formulations
DNA and RNA phosphoramidites are our specialty.
• Complete scale-up, process development and We purify by preparative column chromatography on
analytical method development services silica gel with medium to high press chromatography
equipment. All materials undergo complete analytical
• Complete control and documentation processes
support prior to their release with purification
• A highly-qualified scientific staff with extensive supported by:
backgrounds in nucleic acid products and
• Annual amidite purification capacity of over
specialty monomers
5,000 kg
• An ISO certified manufacturing facility built for
• Large automated preparative HPLC with scales
amidites production backed by a solid audit
to 500 mm column diameter
track record
• DCM handling capability
• Phosphoramidite manufacturing capacity of
over 5 tons per year • Automated batch processing
• The dependability that your intellectual property • State-of-the-art process visualization

will be treated with respect
• Built-in Clean In Place (CIP) procedures
Filling
Customers appreciate our flexible packaging
options and we can meet specific requirements for
commercial synthesizers. In liquid fill, our completely
segregated operations support glass bottle and
drum containers. Automated powder fill lines include
synthesis column assembly and custom packaging
— from milligrams to tons. Our comprehensive
services include global warehousing and storage
for our customer’s manufactured products.
2
Custom Manufacturing • Nucleoside phosphoramidites and other
activated monomers, nucleobase modifications,
SAFC Supply Solutions’ Proligo Reagents is non-natural nucleosides, alternative protective
a skilled custom synthesis manufacturer for groups, backbone modifications
nucleic acids products. Our strong history in • Solid phase synthesis supports loaded with
the genomics industry and solid manufacturing unusual base; alternative linkage
foundation combine with SAFC Supply Solutions’ • Modifiers and specialties
industry-leading regulatory knowledge and
• Solutions and solvents for DNA/RNA
allows us to manufacture materials to the highest
synthesizers
quality levels demanded by the pharmaceutical
and diagnostics industries.
SAFC handles these critical materials
If you are looking for a unique modifier, you can for large-scale production
remain confident our staff has the expertise to
• Phosphorous trichloride and organic
support your program development, scale-up,
phosphorous (III) chlorides
analytical, quality assurance, packaging and
distribution, and will never compromise your • Phosphorous oxychloride
intellectual property. We understand the efficiencies
• Carbonic acid chlorides
gained by proper project management. We realize
the value working with a knowledgeable partner • Trimethylchlorosilane
brings to every step of process development and
• Trimethylsilyl triflate
we know the importance of quality assurance. We
understand the science and have the capabilities to • Dimethylamine
support your cGMP synthesis operations. SAFC
Supply Solutions Proligo Reagents is the industry’s
leading specialist in manufacturing:
SAFC Capabilities
Process/Technology Features Reactions/Examples

Phosphoramidation Introduction of the diisopropyl-β-cyanoethyl
phosphoramidite group N
R O H R O P
O N
C
Tritylation (Dimethoxytritylation) Introduction of triphenylmethyl protective groups

R O H R O C O C H 3
O C H 3
Silylation/Desilylation Introduction or removal of silyl protective groups

Base O Base
HO
O
O S i
S i
O O H
H O O H
N- and O-Acylation Introduction of nucleobase and ribose protective groups N H 2 C O
N H
N
N
O N
O N
R ib o s e
R ib o s e
O N H 2
Nucleobase Conversion Transformation of easily assessable nucleosides to
C H 3 C H 3
nucleosides with other nucleobases H N N
O N O N
S u g ar S u ga r
Preparative Chromatography High-pressure, fully automated separation on normal phase >99% purity
silica gel including freely programmable gradient elution
Surface Chemistry Loading and capping of functionalized glass and organic R

O Base
O
polymer surfaces
O
O
N H
2 N
H
O
3
Proligo® Reagents
Compliance
Strong ties in supplying materials to the
pharmaceutical industry have helped our
customers around the world to understand
compliance requirements of their new materials.
Our strict quality control procedures include full
traceability, complete documentation and change
control notification. All our manufacturing
processes are monitored and reviewed, with
controls in place at each critical parameter to
ensure compliance.
Quality Control
SAFC has rigorous QC protocol for every product
we produce to identify purity levels against set
specifications. We can provide custom QC testing
upon request. We routinely use these state-of-the-
art analytical methods:
• RP & SAX HPLC
• LC-MS
• NMR (31P, 1H, C,

13
F)
19
• Nucleic acid synthesis test
• FT-IR
• Titration & “Wet Chemistry”
• UV/VIS
• Karl Fischer water analysis
• Mercury porosimetry
Quality Assurance
As a trusted partner to the oglionucloetide market,
SAFC assists its customers in new product
development. We know that developing materials
includes having insight to their quality
requirements. As a result, our company operates
in a culture that fosters continuous process
improvement and has quality systems in place to
provide complete traceability on all our raw
materials, processes and procedures. We serve
customers requesting audits with complete
documentation and files. Our quality assurance
department routinely accepts requests for
documentation, including Certificates of Origin.
Our Hamburg facility was one of the first in the
industry to be ISO 9001 certified (1993), and we
have synthesized amidites under ISO9000:2000
since that time.
4
Packaging
Flexible packaging options are available to meet Sheboygan, Wisconsin facilities with capabilities
virtually any synthesizer requirement, including from bottles to 1,400 L returnable cylinders. We
ABI® 394, ABI® 3900, Expedite™, AKTA and Mermade. have distribution offices around to globe to offer
Inquire for custom packaging requirements. our customers the convenience of a worldwide
distribution network with the advantages of
To complete the single-source supplier advantage,
dedicated airfreight space, chemical transport
from product order to delivery, SAFC has liquid
regulations and local delivery knowledge.
filling and blending capabilities at its Hamburg and
Standard Bottles and Characteristics

Description Height (cm) Diameter (cm) Quantity (powder) Quantity (liquid reagents)
15 ml septum 4.5 2.9 0.25 g, 0.5 g, 1 g
60 ml septum 10.0 3.3 1 g, 2 g, 4 g
100 ml septum 9.5 5.1 5 g, 10 g 100 ml
1 oz 20/400 (30 ml) 7.8 3.1 0.25 g, 0.5 g, 1 g
2 oz 20/400 (60 ml) 9.4 3.8 1 g, 2 g
8 oz 24/400 (240 ml) 13.7 6.0 10 g 180 ml, 200 ml
8 oz 28/400 (240 ml) 13.7 6.0 5 g, 10 g 200 ml
16 oz 28/400 (480 ml) 17.0 7.2 10 g, 20 g 450 ml
1 g CPG bottle (10 ml) 5.8 2.5 1g
10 g CPG bottle (50 ml) 9.5 4.0 10 g
V-Vial 20/400 6.0 2.0 0.1 g, 0.25 g
2.5 L GL45 29.6 13.5 2500 ml
4 L 38/430 35.3 16.1 4000 ml
15 ml septum 60 ml septum 100 ml septum 1 oz 20/400 2 oz 20/400
8 oz 24/400 8 oz 28/400 16 oz 28/400 1 g CPG 10 g CPG
V-Vial 20/400 2.5 L GL45 4 L 38/430 Bulk Packaging
5
Proligo® Reagents
Worldwide Packaging Options
Standard drums and characteristics

Description Capacity Total Capacity Weight Height Diameter Wall thickness
1400 L Returnable Container 1400 L 1500 L 247 kg 1960 mm 1200 mm N/A
200 L Returnable Drum, Standard 200 L 225 L 43 kg 970 mm 600 mm 2 mm
200 L Returnable Drum, Level Sensor 200 L 225 L 43 kg 970 mm 600 mm 2 mm
200 L Drum, Disposal 180 L 200 L 21 kg 884 mm 585 mm 1 mm
50 L Returnable Drum 45 L 50 L 12 kg 600 mm 363 mm 1.5 mm
30 L Drum, Disposal 25 L 30 L 3.4 kg 560 mm 280 mm 0.5 mm
18 L Returnable Drum 18 L 20 L 6.6 kg 442 mm 278 mm 1.5 mm
Some packaging options may not be available in your region. Please contact your sales representative to inquire.
Additional Packaging Options (U.S. Only)
Standard drums and characteristics

Description Capacity Total Capacity Weight Height Diameter Wall thickness
20 L Returnable Drum 20 L 22 L 8 kg 20 inches 11 inches 1.5 mm
50 L Returnable Drum 50 L 55 L 15 kg 23 inches 16 inches 1.5 mm
200 L Returnable Drum 200 L 220 L 47 kg 38 inches 24 inches 2 mm
200 L Returnable Drum, Level Sensor 200 L 220 L 47 kg 38 inches 24 inches 2 mm
Other containers available upon custom packaging request, please inquire your sales representative.
6
Products
Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8
Pharmadite® for Pharmaceutical Applications . . . . . . . . . . . . . . . . . . . . . . . . . 8
DNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11
Fast Deprotection Chemistries . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12
RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15
2'O-Methyl RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22
DMT-2'Fluoro Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26
Labels and Modifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
Non-Standard Nucleosides . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35
Phosphate-ON Phosphoramidite . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 38
NPPOC Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
Solid Supports . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 42
Controlled Pore Glass and Columns — CPG Free Flow . . . . . . . . . . . . . . . . 42
Columns for Synthesizers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 43
Amino-ON CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 45
Universal CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 47
Liquid Reagents . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 49
Activator 42® . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 52
Product List . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 53
7
Products Pharmadite® for Pharmaceutical Applications
Pharmadite for Pharmaceutical Features Benefits

Applications • Consistent quality • Reproducible
oligonucleotide
The Pharmadite product line represents a new synthesis
class of standard protected DNA and RNA • Suitability as starting material • Accordance with
phosphoramidites designed with highly for API manufacture regulatory
guidelines
controlled impurity profiles and exceptional - Raw material control and
traceability
overall purity.
- Process control
Pharmadite products fulfill all the requirements of
- Validated analytical methods
starting materials for the manufacture of active
pharmaceutical ingredients as defined in the EMEA - Tight specifications
“Note for guidance on chemistry of the new active - Known impurity profiles
substance,”* making them suitable building blocks • Very high purity • High production
for oligonucleotide drugs. efficiency
Pharmadite amidites are manufactured in scales of • Non-animal origin of starting • TSE safety
materials
up to multi-hundred kilos, under certified ISO 9001
• Available in large scale • Secure supply
quality systems at SAFC Supply Solutions
manufacturing facility in Hamburg, Germany. • Supply through our worldwide • Long-term reliability
supply chain
We start with traceable, non-animal and very pure
raw materials, use highly controlled synthesis and
purification processes, validated analytical
methods and cleaning processes, all governed
Manufacturing
with strict change control and documentation to Pharmadite amidites are prepared from DMT-
yield unprecedented high quality products with protected nucleosides and the phosphitylating
purity ratings at 99.5% or higher for DNA and agent “bis-amidite.”
99.0% or higher for RNA.
The crude phosphoramidites are then purified by
All remaining impurities, if present, are identified preparative HPLC, dried and packaged. To ensure
and characterized at a level of 0.1%. the highest quality, our production process begins
with starting materials that possess stringent
The high level of control and documentation
specifications and defined impurity profiles. Our
imposed at every step of the production process
HPLC production line is cleaned using validated
support regulatory requirements to make Pharmadite
cleaning methods and cleaning verification is
amidites ideal for pharmaceutical applications.
performed prior to each batch. Reactions are
conducted at a minimum synthesis scale of 50 kg
per batch.
Each processing step is monitored using analytical

in-process controls, including HPLC.
QC QC QC
Starting Matl. In-Process In-Process Bulk Packaged Matl
Specifications Controls Controls Specifications Specifications
DMT- Crude Purified Bulk Packaged

dNucleoside Phosphoramidite Phosphoramidite Phosphoramidite Phosphoramidite
Synthesis HPLC Drying Packaging

Purification
*EMEA: European Medicines Agency, http://www.emea.eu.int
8
Specifications
Pharmadite amidites are characterized by their
exceptional purity and well-defined impurity profile.
In particular, they are essentially free from
contaminants which interfere in coupling reactions,
such as other nucleosidic or non-nucleosidic
phosphoramidites (P(III)-contaminants).
DNA Pharmadites Acceptance Limit RNA Pharmadites Acceptance Limit

Characteristic Characteristic
Appearance white to off-white powder or Appearance white to off-white powder or
granules granules
Appearance of Solution ≤10 Hazen (c = 0.2 M in ACN) Appearance of Solution ≤10 Hazen (c = 0.2 M in ACN)
Solubility clear solution (c = 0.2 M in ACN) Solubility clear solution (c = 0.2 M in ACN)
Identification conforms HPLC Identification conforms
HPLC Purity ≥99.5% area HPLC Purity ≥99.0% area
Specified impurities ≤0.3% area, see impurities table Specified Impurities See impurities table
Single Unspecified Impurity ≤0.1% area Single Unspecified Impurity ≤0.1% area
31 ≥99.5% area 31 ≥99.0% area
P NMR Purity P NMR Purity
31 ≤0.1% area 31 ≤0.3% area
P NMR P(III) Impurities P NMR P(III) Impurities
(@ 100 to 169 ppm) (@ 100 to 169 ppm)
31 ≤0.5% area 31 ≤1.0% area
P NMR P(V) Impurities P NMR P(V) Impurities
(@ -25 to 99 ppm) (@ -25 to 99 ppm)
31 not detected: S/N < 2.5 31 not detected
P NMR ≥170 ppm Impurities P NMR ≥170 ppm Impurities
(@ 170 to 225 ppm) (@ 170 to 225 ppm)
Residual Solvent Content ≤3.0% wt Residual Solvent Content ≤3.0% (w/w)
Water Content ≤0.40% wt Water Content ≤0.40% (w/w)
Origin of Nucleoside non-animal origin Origin of Nucleoside non-animal origin
All remaining impurities in Pharmadite amidites, if

present, are identified, characterized and quantified.
The impact of any such defined impurities on the
synthesis of oligonucleotides is well understood and
has been shown to be insignificant.
Specified Impurities of DNA Pharmadites A C G T

DMT-dNucleoside-cyanoethyl-H-phosphonate ≤0.3% ≤0.3% ≤0.3% ≤0.3%
DMT-dNucleoside phosphoramidate ≤0.3% ≤0.3% ≤0.3% ≤0.3%
DMT-dNucleoside-diisopropylamino-H-phosphonate not specified not specified ≤0.3% not specified
03'-Benzoyl-O5'-DMT-dC(bz) not applicable ≤0.3% not applicable not applicable
Specified Impurities of RNA Pharmadites A C G U

2'O-Amidite-3'O-TBDMS-5'O-DMT-rNucleoside ≤0.3% area ≤0.3% area ≤0.3% area ≤0.3% area
DMT-rNucleoside TBDMS ≤1.0% area ≤1.0% area ≤1.0% area ≤1.0% area
DMT-rNucleoside TBDMS-cyanoethyl-H-phosphonate ≤1.0% area ≤1.0% area ≤1.0% area ≤1.0% area
DMT-rNucleoside TBDMS-phosphoramidate ≤1.0% area ≤1.0% area ≤1.0% area ≤1.0% area
9
Products Pharmadite® for Pharmaceutical Applications
Quality system and production

process designed to meet
pharmaceutical standards.
Control of starting materials and production process
DNA Pharmadites
is a key factor in the synthesis procedure of RNA
Catalog No. Description
Pharmadite. The phosphitylating reagent is controlled
at a level of 0.1% P(III)- impurities. RNA Pharmadite A111P00-C DMT-dA(bz) Pharmadite
amidites are purified by preparative HPLC in a highly C111P00-C DMT-dC(bz) Pharmadite

automated purification plant. ISO 9001 certified since G111P00-C DMT-dG(ib) Pharmadite
1993, we guarantee reproducible quality with
T111P00-C DMT-dT Pharmadite
predictable and controlled production:
RNA Pharmadites
• Robust process parameters A211P00-C DMT-2'O-TBDMS-rA(bz) Pharmadite
• In-process controls with specifications C213P00-C DMT-2'O-TBDMS-rC(ac) Pharmadite
G211P00-C DMT-2'O-TBDMS-rG(ib) Pharmadite

• Batch integrity
U211P00-C DMT-2'O-TBDMS-rU Pharmadite
• Change control
• Batch record review
• Process database and trend analysis
• Validated cleaning procedures
dA(bz) Phosphoramidite dG(ib) Phosphoramidite
dC(bz) Phosphoramidite dT Phosphoramidite
10
DNA Phosphoramidites
DNA Phosphoramidites Standard DNA Phosphoramidites (cont.)

Compatible with MerMade Instruments (8oz 28/400 bottle)
SAFC Supply Solutions’ world-class expertise in
A111085-06 DMT-dA(bz) Amidite 6x5g
nucleic acid synthesis began in 1983 when Dr.
C111085-06 DMT-dC(bz) Amidite 6x5g
Hubert Köster first commercialized the synthesis
G111085-06 DMT-dG(ib) Amidite 6x5g
of ß-cyanoethylphosphoramidites. Since then,
T111085-06 DMT-dT Amidite 6x5g
the company has refined and perfected the
A111028-06 DMT-dA(bz) Amidite 6 x 10 g
production of DNA and RNA phosphoramidites.
C111028-06 DMT-dC(bz) Amidite 6 x 10 g
Today, SAFC Supply Solutions offers the highest
G111028-06 DMT-dG(ib) Amidite 6 x 10 g
quality phosphoramidites in the industry.
T111028-06 DMT-dT Amidite 6 x 10 g
Compatible with Äkta and Oligo Pilot Instruments (100 ml septum bottle)
DNA Phosphoramidites A111005-01 DMT-dA(bz) Amidite 1x5g

Key Features of DNA Phosphoramidites
• Exocyclic amine functions are protected by a
T111005-01 DMT-dT Amidite 1x5g
benzoyl group (dA(bz) and dC(bz)) or
isobutyryl group (dG(ib))
• Recommended cleavage and deprotection
conditions are 8 hours at 55°C or 24 hours at
room temperature using concentrated ammonia T111005-06 DMT-dT Amidite 6x5g
solution, for standard base-protected A111010-01 DMT-dA(bz) Amidite 1 x 10 g

oligonucleotides C111010-01 DMT-dC(bz) Amidite 1 x 10 g
• The high coupling efficiency of Proligo G111010-01 DMT-dG(ib) Amidite 1 x 10 g

Reagents’ DNA phosphoramidites leads to T111010-01 DMT-dT Amidite 1 x 10 g
high-yield, high-quality oligonucleotides
Bulk Quantities (16 oz 28/400 bottle)
Standard DNA Phosphoramidites G111021-06 DMT-dG(ib) Amidite 6 x 10 g
Compatible with Expedite and Polygen Instruments T111021-06 DMT-dT Amidite 6 x 10 g
Catalog No. Description Unit A111020-06 DMT-dA(bz) Amidite 6 x 20 g

A111081-12 DMT-dA(bz) Amidite 12 x 1 g C111020-06 DMT-dC(bz) Amidite 6 x 20 g
C111081-12 DMT-dC(bz) Amidite 12 x 1 g G111020-06 DMT-dG(ib) Amidite 6 x 20 g
G111081-12 DMT-dG(ib) Amidite 12 x 1 g T111020-06 DMT-dT Amidite 6 x 20 g
C111082-12 DMT-dC(bz) Amidite 12 x 2 g Customized packaging

G111082-12 DMT-dG(ib) Amidite 12 x 2 g Bulk packaging up to multiple kg per container
T111082-12 DMT-dT Amidite 12 x 2 g and customized packaging with alternative
Compatible with ABI Instruments quantities of amidites are available upon request.
11
Products Fast Deprotection Chemistries
Fast Deprotection Chemistries Overview
The deprotection step of automated Fast deprotection Monomers Cleavage and Time/
methods deprotection Temperature
oligonucleotide synthesis is integral to synthesis reagents
time and final product quality. We offer various Substitution of dA(bz), AMA reagent** 10 min. at 65°C
dC(bz) with dC(ac) dC(ac),
fast deprotection chemistries for the rapid and (Beckmann dG(ib),
high-yield synthesis of high-purity. method) dT
15 min. at 55°C
Concentrated
dA(tac), or 2 hrs. at
ammonia*
room temp.
1. Substitution of dC(bz) with dC(ac) — TAC chemistry
dC(tac),
Beckman licenced method dG(tac),
5 min. at 65°C
dT
AMA reagent** or 30 min. at
Proligo Reagents’ portfolio of oligonucleotide
®
room temp.
synthesis reagents with acetyl-protected
dA(bz),
phosphoramidtes and CPG has a license for Concentrated 2 hrs at 55°C
dG(dmf) method dC(bz),
ammonia* or 1 hr. at 65°C
Beckman Coulters’s fast deprotection chemistry. dG(dmf), dT
dA(bz),
Key Features of Acetyl-protected Substitution of
dC(tac), AMA reagent** 10 min. at 65°C
phosphoramidtes dC(bz) with dC(tac)
dG(ib), dT
• Ultrafast deprotection
(10 minutes at 65°C) * ≥25% ammonia in water
** Mixture of ≥25% ammonia in water with 40% aqueous
• Key component in oligonucleotide synthesis
methylamine I/I, v/v
• Industry standard for fast
deprotection chemistry 2. TAC Chemistry
• Operating for AMA methods without changes Substitution of standard protecting groups with the
labile TAC (tert.butylphenoxyacetyl) protecting
• Consistent lot-to-lot high purity group results in ultra-fast and easy deprotection
and performance under mild conditions, suitable for oligonucleotides
• Manufactured under a certified ISO 9001 with base-labile monomers and reporters as well
quality system as in-situ synthesis schemes on glass surfaces.
O
OMe
HN
O N
MeO O
O
O
P O
N
CN
dC(ac) Phosphoramidite dC(tac) Phosphoramidite dG(dmf) Phosphoramidite
12
Key features of TAC Chemistry 4. Substituting the dC Protecting Group
• Deprotection of the TAC group is ultra-fast: Changing the dC protecting group to the TAC
complete deprotection in concentrated protecting group leads to rapid synthesis of high-
ammonia occurs within 15 minutes at 55°C or purity and high-yield oligonucleotides. Substituting
two hours at room temperature the commonly employed dC(bz) monomer by the
dC(tac) monomer enables the application of ultra-
• Compatible with the AMA deprotection reagent
fast deprotection with the AMA reagent and
(a mixture of ≥25% ammonia in water with 40%
provides a high-throughput method of
aqueous methylamine I/I, v/v)
oligonucleotide synthesis.
• Highly soluble in acetonitrile. No need to add
co-solvents such as dimethylformamide or
Key Features of Substituting the dC
methylene chloride
Protecting Group
• Suitable for the synthesis of oligomers with
• The deprotection of oligonucleotide synthesis
base-labile units e.g., dyes and modifiers,
products with the AMA reagent is ultra-fast:
because of less exposure to ammonia and the
complete deprotection requires 10 minutes
possibility of room temperature deprotection
at 65°C
• No change is required in the reagents
• Side reactions at C-monomers through
commonly used for DNA synthesis, except that
transamination are eliminated
Proligo Reagents’ Fast Deprotection Cap A
solution is used instead of Cap A solution • Not compatible with some base-labile modified
nucleosides
• The application of dA(tac) minimizes
depurination and improves the quality of • dC(tac)-amidite can directly substitute for
oligonucleotides dC(bz)-amidite

3. dG(dmf) Method commonly used for DNA synthesis: acetonitrile
is used to dissolve the amidite. The standard
Changing the dG protecting group to the acetic anhydride capping reagent can be
dimethylformamidine (dmf) base-protecting group employed
enables rapid synthesis of high-purity, high-yield
oligonucleotide, thus increasing the efficiency of
high-throughput production.
Key Features of dG(dmf)
• dG(dmf) is deprotected faster than the

conventional dG(ib): the deprotection time in
concentrated ammonia is reduced to 2 hours at
55°C or 1 hour at 65°C
• The dG(dmf)-monomer is especially suitable for

G-rich sequences: incomplete deprotection is
greatly reduced in comparison with the
conventional dG(ib)-monomer
• dG(dmf)-amidite is as stable in solution as the

standard dA(bz)-, dC(bz)- and dT-amidites
• dG(dmf)-amidite can directly substitute for

dG(ib)-amidite

commonly used for DNA synthesis (except a
low concentration iodine oxidizer i.e., 0.02 M in
iodine, should be employed)
13
Products Fast Deprotection Chemistries
Fast Deprotection Phosphoramidites

Compatible with Expedite and Polygen Instruments
Catalog No. Description Unit
C113081-12 DMT-dC(ac) Amidite 12 x 1 g
A112081-12 DMT-dA(tac) Amidite 12 x 1 g
C112081-12 DMT-dC(tac) Amidite 12 x 1 g
G112081-12 DMT-dG(tac) Amidite 12 x 1 g
G115081-12 DMT-dG(dmf) Amidite 12 x 1 g
Compatible with ABI Instruments

Compatible with MerMade Instruments (8oz 28/400 bottle)

C113085-06 DMT-dC(ac) Amidite 6x5g
C112085-06 DMT-dC(tac) Amidite 6x5g
G115085-06 DMT-dG(dmf) Amidite 6x5g
Compatible with Äkta and Oligo Pilot Instruments (100 ml septum bottle)
G115005-01 DMT-dG(dmf) Amidite 1x5g
Bulk Quantities (16 oz 28/400 bottle)

14
RNA Phosphoramidites, 2'O-Methyl RNA Phosphoramidites
RNA Phosphoramidites, RNA Phosphoramidites

2'O-Methyl RNA RNA plays a pivotal role in biological systems
Phosphoramidites due to its numerous functions in the transfer and
processing of genetic information. The unique
Modern phosphoramidite mediated synthesis
properties of RNA have stimulated the
has enabled routine high yielding preparations of development of a variety of applications in
RNA- and 2'O-Methyl RNA oligonucleotides. High diagnostics and therapeutics, as well as in basic
quality RNA amidites are key to low failure rates, molecular biology research where RNA can be
used as:
high biological activity of synthesis products and
cost effectiveness. SAFC Supply Solutions • Catalytic agents (ribozymes)
provides high purity RNA amidites and 2'O- • Affinity ligands (aptamers)
Methyl RNA amidites. RNA monomers carry the • Agents to induce gene silencing
industry standard 2'-TBDMS protective group. (RNA interference)
RNA interference (RNAi) has become a popular

Standard RNA Amidites tool for the sequence-specific inhibition of gene
expression and can be used in target validation
• Industry standard 2'-TBDMS protective group and other drug development techniques. The most
• Consistent lot-to-lot purity and performance convenient method to provide sequence-specific
RNA oligonucleotides is chemical synthesis on a
• Compatible with deprotection methods based solid support with RNA phosphoramidites and RNA
on methylamine or AMA CPG, analogous to DNA synthesis.
• Standard RNA amidites provide excellent
coupling results when used with ETT or BTT as
activator; best results are obtained with
Activator 42
• Capping with standard acetic anhydride

capping reagent rather than with Fast
Deprotection Cap A
• Manufactured under a certified ISO 9001

quality system
RNA Phosphoramidites with Fast

Deprotection Chemistry
Advantages of synthesis with TAC-protected
RNA phosphoramidites
• Increased synthesis yield and reduced

purification efforts
• Dramatically reduced deprotection times
• Minimized exposure to alkaline

deprotection medium
• Minimized chain degradation

during deprotection
15
Products
RNA Synthesis
The synthesis cycle for RNA oligonucleotides deprotection of the RNA oligomer, e.g., with a solution
consists of the same series of reactions as the of tetrabutylammonium fluoride (TBAF) in tetra-
cycle that is employed for DNA monomers. hydrofane (THF) or with triethylamine hydrofluoride.
However, the rate of coupling for RNA monomers

is slower, compared to that of DNA monomers (for
RNA Phosphoramidites
RNA monomers a coupling time of 10 minutes or 6
minutes using Activator 42 is recommended
compared to 90 seconds for DNA monomers).
A211081-01 DMT-2'O-TBDMS-rA(bz) Amidite 1 x 0.5 g
With the exception of the monomers and supports,
RNA synthesis is accomplished with the same C213081-01 DMT-2'O-TBDMS-rC(ac) Amidite 1 x 0.5 g
reagents as DNA synthesis. G211081-01 DMT-2'O-TBDMS-rG(ib) Amidite 1 x 0.5 g
All RNA phosphoramidites are diluted with U211081-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g
dry acetonitrile. Compatible with ABI Instruments

A211031-01 DMT-2'O-TBDMS-rA(bz) Amidite 1 x 0.5 g
User Instructions C213031-01 DMT-2'O-TBDMS-rC(ac) Amidite 1 x 0.5 g
G211031-01 DMT-2'O-TBDMS-rG(ib) Amidite 1 x 0.5 g

RNA monomers feature hydroxyl groups at the 2'-
position. In order to prevent the formation of unnatural U211031-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g
2'-5' phosphodiester bonds during chain elongation, A211061-01 DMT-2'O-TBDMS-rA(bz) Amidite 1x1g
the 2'OH group is protected with a trialkyl-silyl group, C213061-01 DMT-2'O-TBDMS-rC(ac) Amidite 1x1g
tert-butyldimethylsilyl (TBDMS). The TBDMS group is
G211061-01 DMT-2'O-TBDMS-rG(ib) Amidite 1x1g
stable under the acidic conditions used to remove the
U211061-01 DMT-2'O-TBDMS-rU Amidite 1x1g
DMT group during the synthesis cycle, but can be
removed by a variety of methods after cleavage and Other quantities and packaging are available upon request.
O O
OMe OMe
HN HN
N N
N
N N O N
MeO O MeO O
O O
O OTBDMS O OTBDMS
P O P O
N N
CN CN
DMT-rA(bz) Phosphoramidite DMT-rC(ac) Phosphoramidite

Chemical Formula: C53H66N7O8PSi Chemical Formula: C47H64N5O9PSi
Formula Weight: 988.2 Formula Weight: 902.1
Storage: ≤-10°C Storage: ≤-10°C
DMT-rAdenosine(N6-bz)(2'O-TBDMS)-ß-Cyanoethylphosphoramidite DMT-rCytidine(N4-ac)(2'OTBDMS)-ß-Cyanoethylphosphoramidite
OMe OMe
O O
N HN
NH O
N N N O N
MeO O H MeO O
O O
O OTBDMS O OTBDMS
P O P O
N N
CN CN
DMT-rG(ib) Phosphoramidite DMT-rU Phosphoramidite

Chemical Formula: C50H68N7O9PSi Chemical Formula: C45H61N4O9PSi
DMT-rGuanosine(N2-ib)(2'O-TBDMS)-ß-Cyanoethylphosphoramidite DMT-rUridine(2'O-TBDMS)-ß-Cyanoethylphosphoramidite
16
User Instructions (continued)
1. Use anhydrous acetonitrile (water content DEPC (diethyl pyrocarbonate, stir 1L of HPLC
≤30 ppm) as diluent. It is important to grade water with 100 l DEPC overnight and
maintain anhydrous conditions while autoclave twice) and use baked glassware
dissolving RNA amidites in acetonitrile. (250°C+ for more than 4 hours).
2. For use on PE 8900 instruments, add 10 ml 9. Transfer the supernatant solution of the RNA
of acetonitrile to 0.5 g RNA monomer, to oligonucleotide into a separate vial. The yield
obtain a concentration of 50 mg/ml. For use of the RNA oligonucleotide can be improved
on PE 390 series instruments, add 5 ml by rinsing the support with ethanol/acetonitrile/
acetonitrile to 0.5 g RNA monomer to obtain water 3/1/1, v/v, and combining the
a concentration of 100 mg/ml. oligonucleotide solution with the washing
solution. Evaporate to dryness.
3. Gently swirl the vial until the powder is
completely dissolved. 10. Add a 1 M solution of tetrabutylammonium
fluoride (TBAF) in THF and incubate for 24
4. Attach the dissolved phosphoramidite to the
hours at room temperature. The deprotection
appropriate position on the synthesizer.
time can be shortened to 6 hours if a TBAF-
Ensure that the delivery line to the synthesis
solution, with water content less than 5%, w/w,
chamber is sufficiently primed.
is employed. Following deprotection, add an
5. Enter the sequence of the RNA equal volume of 1 M TEAA buffer pH 7,
oligonucleotide you wish to synthesize. A followed by another volume of water.
minimum coupling time of 10 minutes or 6 Alternatively, deprotection can be
minutes using Activator 42 is recommended accomplished using a mixture of neat
for 2'-TBDMS protected RNA amidites. triethylamine trihydrofluoride, triethylamine
and N-methylpyrrolidon, 4/3/6, v/v, which can
6. Proceed as you would with a standard DNA
be employed for 90 minutes at 65°C. The
oligonucleotide synthesis. Depending on
deprotection reaction is quenched by the
your intended further use of the oligomer, you
addition of an equal volume of water in this
can choose either DMT-On or DMT-Off
case. Note that the application of triethylamine
procedures. The coupling efficiency of RNA
trihydrofluoride in the DMT-On mode will lead
monomers may be determined by standard
to detritylation, due to the acidity of the
dimethoxytrityl cation assays.
reagent.
7. Cleave from the support and deprotect the
11. Desalt the RNA oligonucleotide by using a
RNA oligonucleotide with a mixture of
desalting matrix such as Sephadex® G25, an
concentrated ammonia and ethanol 3/1, v/v,
ion exchange cartridge, or a reversed phase
at 55°C for 8 hours, or at room temperature
purification cartridge. Optimal conditions for
for 24 hours. Alternatively, AMA reagent
desalting vary greatly with the employed
(concentrated ammonia/40% aqueous
matrix/product. Conditions recommended by
methylamine 1/1, v/v) can be employed for
the manufacturer should generally be applied.
10 minutes at 65°C.
The lyophilized crude RNA oligonucleotide
8. It is essential to employ sterile conditions product can be purified by AX-HPLC or by
from this step forward. Always use sterilized preparative gel electrophoresis.
water: preferably water recently treated with
17
Products
Key Features of TAC-Protected RNA O

Phosphoramidites OCH3 O
HN
• Base protected by a tert-butylphenoxyacetyl N N
(TAC) group, in the same manner as DNA
N N
phosphoramidites CH3O O
O
• Uses the same synthesizer protocols

as recommended for bz/ib protected O OTBDMS
N C P
RNA monomers O N(iPr)2
• Follows the established DNA synthesis cycle, rA(tac) Phosphoramidite

but with prolonged coupling times due to Chemical Formula: C58H76N7O9PSi
steric hindrance Formula Weight: 1074.4
• Same liquid reagents are used throughout the Storage: ≤-10°C
synthesis cycle as in DNA synthesis, except DMT-rAdenosine (N6-tac)(O2'-TBDMS)-ß-Cyanoethylphosphoramidite

that Fast Deprotection Cap A reagent must be
O
employed with Proligo Reagent’s TAC-
OCH3 O
protected phosphoramidites HN
N
• Fast Deprotection Cap A contains tert-
butylphenoxyacetyl acetic anhydride (tac2O) in O N
CH3O O
O
tetrahydrofuran, which ensures that the
displacement of tert-butylphenoxyacetyl (TAC)
on guanine bases does not occur O OTBDMS
N C P
O N(iPr)2
• Cleavage and deprotection procedures are
comparable with those of DNA synthesis, with rC(tac) Phosphoramidite
an additional step to remove the 2'OH Chemical Formula: C57H76N5O10PSi
protecting group Formula Weight: 1050.3
• 2'OH function is protected by a tert- Storage: ≤-10°C
butyldimethylsilyl (TBDMS) group to prevent DMT-rCytidine(N4-tac)(O2'-TBDMS)-ß-Cyanoethylphoshoramidite

derivatization and degradation during the
synthesis cycle OCH3
O
Although our TAC-protected RNA monomers N NH O

display sufficient stability in solution over N O
N N
CH3O O H
several days, we recommend to reconstitute fresh O
amidites after 6 days on the instrument to achieve

optimal results. O OTBDMS
N C P
O N(iPr)2
rG(tac) Phosphoramidite
Chemical Formula: C58H76N7O10PSi
Formula Weight: 1090.3
Storage: ≤-10°C
DMT-rGuanosine(N2-tac)(O2'-TBDMS)-ß-Cyanoethylphosphoramidite
OCH3
O
HN
O N
CH3O O
O
O OTBDMS
N C P
O N(iPr)2
rU Phosphoramidite
Chemical Formula: C45H61N4O9PSi
Storage: ≤+10°C
DMT-rUridine(O2'-TBDMS)-ß-Cyanoethylphosphoraamidite
18
Fast Deprotection RNA Phosphoramidites
A212081-01 DMT-2'O-TBDMS-rA(tac) Amidite 1 x 0.5 g
C212081-01 DMT-2'O-TBDMS-rC (tac) Amidite 1 x 0.5 g
G212081-01 DMT-2'O-TBDMS-rG(tac) Amidite 1 x 0.5 g
U211081-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g

A212031-01 DMT-2'O-TBDMS-rA(tac) Amidite 1 x 0.5 g
C212031-01 DMT-2'O-TBDMS-rC (tac) Amidite 1 x 0.5 g
G212031-01 DMT-2'O-TBDMS-rG(tac) Amidite 1 x 0.5 g
U211031-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g
A212061-01 DMT-2'O-TBDMS-rA(tac) Amidite 1x1g
C212061-01 DMT-2'O-TBDMS-rC (tac) Amidite 1x1g
G212061-01 DMT-2'O-TBDMS-rG(tac) Amidite 1x1g
U211061-01 DMT-2'O-TBDMS-rU Amidite 1x1g
Compatible with MerMade Instruments

A212028-06 DMT-2'O-TBDMS-rA(tac) Amidite 6 x 10 g
C212028-06 DMT-2'O-TBDMS-rC (tac) Amidite 6 x 10 g
G212028-06 DMT-2'O-TBDMS-rG(tac) Amidite 6 x 10 g
U211028-06 DMT-2'O-TBDMS-rU Amidite 6 x 10 g
Bulk Quantities
A212010-01 DMT-2'O-TBDMS-rA(tac) Amidite 1 x 10 g
C212010-01 DMT-2'O-TBDMS-rC (tac) Amidite 1 x 10 g
G212010-01 DMT-2'O-TBDMS-rG(tac) Amidite 1 x 10 g
Customized packaging
Bulk packaging up to multiple kg per container and

customized packaging with alternative quantities of
amidites are available upon request.
19
Products
RNA Supports
Final: Cleavage/Deprotection
The supports for RNA synthesis consist of an RNA
nucleoside covalently attached through either the
1. Deblocking 2. Activation and Coupling
HO Bas e
2'- or the 3'-position to controlled pore glass (CPG).
D MT O Bas e O
O The remaining free hydroxyl group is protected with
D MT O Base a base-labile acyl group. The pore size of Proligo
O
O OTBD MS
Reagents’ CPG for RNA synthesis is 500Å. Proligo
O OTBD MS Reagents offers ready-to-use synthesis columns for
Solid Support
Solid Support
O OTBDMS RNA synthesis at 1 mol scale.
Start next cycle:

N C P
O N (iPr) 2
1. Deblocking
D MT O Base RNA Synthesis
O
D MT O Bas e The synthesis cycle for RNA oligonucleotides
O
consists of the same series of reactions as the
O OTBDMS
cycle that is employed for Fast Deprotection DNA
O P O
N C O OTBD MS monomers. However, the rate of coupling for RNA
O Base
O N C P monomers is slower, compared to that of DNA
O O Base
O monomers (a coupling time of 10 minutes for RNA
4. Oxidation
monomers is recommended compared to 90
O OTBD MS
seconds for DNA monomers). With the exception
Solid Support O OTBD MS
3. Capping of the monomers and supports, RNA synthesis is
O Solid Support
accomplished with the same reagents as DNA
O
O Base synthesis.
O
All RNA phosphoramidites from Proligo Reagents
are diluted with dry acetonitrile. Fast Deprotection
O OTBD MS Cap A is employed to prevent the transacylation of
Solid Support guanosine bases, similar to synthesis of tert-
butylphenoxyacetyl (TAC) DNA monomers.
Fast Deprotection RNA Synthesis Cycle
RNA Monomers
TAC RNA Monomers
RNA monomers feature hydroxyl groups at the 2'-
RNA oligonucleotides prepared from TAC protected position. In order to prevent the formation of
RNA monomers can be base-deprotected under unnatural 2'-5' phosphodiester bonds during chain
very mild conditions. Recommended cleavage and elongation, the 2'OH group is protected with a
deprotection conditions for TAC base-protected trialkyl-silyl group, tert-butyldimethylsilyl (TBDMS).
oligonucleotides are 15 minutes at 55°C or 2 hours The TBDMS group is stable under the acidic
at room temperature, in a mixture of concentrated conditions used to remove the DMT group during
ammonia solution and ethanol (3/1, v/v). the synthesis cycle, but can be removed by a
Alternatively, AMA reagent (concentrated variety of methods after cleavage and deprotection
ammonia/40% aqueous methylamine 1/1, v/v) can of the RNA oligomer, e.g., with a solution of
be employed for 30 minutes at room temperature. tetrabutylammonium fluoride (TBAF) in
The shorter exposure time of the oligonucleotide to tetrahydrofan (THF) or with triethylamine
the alkaline deprotecting agent, compared to hydrofluoride.
conventionally protected RNA oligonucleotides,
reduces chain degradation and provides a higher
yield of full length RNA product.
Although Proligo Reagents’ TAC RNA monomers

are stable for several days in solution, we
recommend reconstitution of fresh amidites after 6
days on the instrument, to achieve optimal results.
20
User Instructions
1. Use anhydrous acetonitrile (water content ≤30 10. It is essential to employ sterile conditions from
ppm) as diluent. It is important to maintain this step forward. Always use sterilized water:
anhydrous conditions while dissolving RNA preferably water recently treated with DEPC
amidites in acetonitrile. (diethyl pyrocarbonate, stir 1 L of HPLC grade
water with 100 ml DEPC overnight and
2. For use on Expedite instruments, add 10 ml
autoclave twice) and use baked glassware
of acetonitrile to 0.5 g RNA monomer, to
(250°C+ for more than 4 hours).
obtain a concentration of 50 mg/ml. For use
on ABI instruments, add 5 ml acetonitrile to 11. Transfer the supernatant solution of the RNA
0.5 g RNA monomer to obtain a concentration oligonucleotide into a separate vial. The yield
of 100 mg/ml. of the RNA oligonucleotide can be improved
by rinsing the support with ethanol/acetonitrile/
water 3/1/1, v/v, and combining the
completely dissolved.
oligonucleotide solution with the washing
4. Attach the dissolved phosphoramidite to the solution. Evaporate to dryness.
12. Add a 1M solution of tetrabutylammonium
fluoride (TBAF) in THF and incubate for
24 hours at room temperature. The
5. Once TAC RNA phosphoramidite has been deprotection time can be shortened to
dissolved and placed on your instrument, the 6 hours if a TBAF-solution, with water content
phosphoramidite should be used within 6 days. less than 5%, w/w, is employed. Following
deprotection, add an equal volume of 1 M
6. Enter the sequence of the RNA
TEAA buffer pH 7, followed by another
oligonucleotide you wish to synthesize. A
volume of water. Alternatively, deprotection
minimum coupling time of 10 minutes or 6
can be accomplished using a mixture of neat
minutes using Activator 42 is recommended
triethylamine trihydrofluoride, triethylamine
for 2'-TBDMS-protected RNA amidites.
and N-methylpyrrolidon, 4/3/6, v/v, which can
7. Fast deprotection Cap A must be employed in be employed for 90 minutes at 65°C. The
all RNA synthesis with the TAC-protected rG deprotection reaction is quenched by the
RNA phosphoramidite. addition of an equal volume of water in this
case. Note that the application of triethyl-
amine trihydrofluoride in the DMT-On mode
oligonucleotide synthesis. Depending on your
will lead to detritylation, due to the acidity of
intended further use of the oligomer, you can
the reagent.
choose either DMT-On or DMT-Off
procedures. The coupling efficiency of RNA 13. Desalt the RNA oligonucleotide by using a
monomers may be determined by standard desalting matrix such as Sephadex® G25, an
dimethoxytrityl cation assays. ion exchange cartridge, or a reversed phase
purification cartridge. Optimal conditions for
9. Cleave from the support and deprotect
desalting vary greatly with the employed
the RNA oligonucleotide with a mixture
matrix/product. Conditions recommended by
of concentrated ammonia and ethanol 3/1,
the manufacturer should generally be applied.
v/v, at 55°C for 15 minutes, or at room
The lyophilized crude RNA oligonucleotide
temperature for 120 minutes. Alternatively,
product can be purified by AX-HPLC or by
AMA reagent (concentrated ammonia/40%
preparative gel electrophoresis.
aqueous methylamine 1/1, v/v) can be
employed for 10 minutes at 65°C.
21
Products
2'O-Methyl RNA Phosphoramidites O

OCH3
HN
2'O-Methyl RNA is a nucleic acid analog that is
N N
characterized by the exceptional hybridization
N N
CH3O O
properties that it imparts with complimentary O
DNA or RNA, as well as increased stability

O OCH3
against enzymatic degradation compared to N C P
O N(iPr)2
natural nucleic acids.
2’0-Methyl-rA(bz) Phosphoramidite
The unique combination of properties of
Chemical Formula: C48H54N7O8P
2'O-Methyl RNA had found widespread use
in the fields of:
Storage: ≤+10°C
• Diagnostic probes
DMT-2'O-Methyl-rAdenosine(N6-Benzoyl)-ß-Cyanoethylphosphoramidite
• Aptamer and ribozyme development
O
• Mixed 2'O-Methyl-RNA/DNA antisense
OMe
HN
molecules
N
2'O-Methyl RNA nucleoside can be advantageously
O N
incorporated in nucleic acid probes with RNA or MeO O
O
DNA for in-vivo or in-vitro applications to convey

nuclease resistance. O OMe
P O
N
CN
Key features of 2'O-Methyl RNA
Phosphoramidites 2’O-Methyl-rC(ac) Phosphoramidite
• High yield of crude oligonucleotides
• Compatible with DNA synthesis
Storage: ≤-10°C
• Can be employed together with DNA or RNA DMT-2'O-Methyl-rCytidine(N4-acetyl)-ß-Cyanoethylphosphoramidite
phosphoramidites in the same synthesis to
produce mixmer oligonucleotides
• Recommended deprotection conditions OCH3

O
are 8 hours at 55°C using concentrated
ammonia solution, or with AMA (concentrated HN
ammonia/40% aqueous methylamine I/I, v/v) for O N

CH3O O
10 minutes at 65°C O
• Purification and other downstream processing

O OCH3
of fully modified 2'O-Methyl RNA N C P
O N(iPr)2
oligonucleotides are simpler than in the case of
RNA, as no special precautions are required to 2’0-Methyl-rU Phosphoramidite
provide protection against nucleolytic Chemical Formula: C40H49N4O9P
degradation
• Synthesis of 2'O-Methyl RNA oligonucleotides Storage: ≤+10°C

is similar to standard DMT-2'O-Methyl-rUridine-ß-Cyanoethylphosphoramidite
DNA synthesis, but requires an elongated
coupling time (recommended is 6 minutes
compared to 90 seconds for DNA monomers)
• 2'O-Methyl RNA phosphoramidites are also

available with fast deprotection chemistry
solutions.
22
O
OCH3
OCH3 O O
HN
N NH O
N
O N N N N
CH3O O CH3O O H
O O
O OCH3 O OCH3
N C P N C P
O N(iPr)2 O N(iPr)2
2’0-Methyl-rC(tac) Phosphoramidite 2’0-Methyl-rG(ib) Phosphoramidite

Chemical Formula: C52H64N5O10P Chemical Formula: C45H56N7O9P
Storage: ≤-10°C Storage: ≤+10°C
DMT-2'O-Methyl-rCytidine(N4-tac)-ß-Cyanoethylphosphoramidite DMT-2'O-Methyl-Guanosine(N2-Isobutyryl)-ß-Cyanoethylphosphoramidite
2’0-Methyl RNA Phosphoramidites Customized packaging

Catalog No. Description Unit Bulk packaging up to multiple kg per container and
Compatible with Expedite Instruments customized packaging with alternative quantities of
A211181-01 DMT-2'O-Me-rA(bz) Amidite 1 x 0.5 g amidites are available upon request.
A212181-01 DMT-2'O-Me-rA(tac) Amidite 1 x 0.5 g
C212181-01 DMT-2'O-Me-rC(tac) Amidite 1 x 0.5 g
C213181-01 DMT-2'O-Me-rC(ac) Amidite 1 x 0.5 g
G211181-01 DMT-2'O-Me-rG(ib) Amidite 1 x 0.5 g
G212181-01 DMT-2'O-Me-rG(tac) Amidite 1 x 0.5 g
U211181-01 DMT-2'O-Me-rU Amidite 1 x 0.5 g

A211131-01 DMT-2'O-Me-rA(bz) Amidite 1 x 0.5 g
A212131-01 DMT-2'O-Me-rA(tac) Amidite 1 x 0.5 g
C212131-01 DMT-2'O-Me-rC(tac) Amidite 1 x 0.5 g
C213131-01 DMT-2'O-Me-rC(ac) Amidite 1 x 0.5 g
G211131-01 DMT-2'O-Me-rG(ib) Amidite 1 x 0.5 g
G212131-01 DMT-2'O-Me-rG(tac) Amidite 1 x 0.5 g
U211131-01 DMT-2'O-Me-rU Amidite 1 x 0.5 g
A211161-01 DMT-2'O-Me-rA(bz) Amidite 1x1g
C212161-01 DMT-2'O-Me-rC(tac) Amidite 1x1g
C213161-01 DMT-2'O-Me-rC(ac) Amidite 1x1g
G211161-01 DMT-2'O-Me-rG(ib) Amidite 1x1g
U211161-01 DMT-2'O-Me-rU Amidite 1x1g
Bulk Quantities
A211110-01 DMT-2'O-Me-rA(bz) Amidite 1 x 10 g
A212110-01 DMT-2'O-Me-rA(tac) Amidite 1 x 10 g
C212110-01 DMT-2'O-Me-rC(tac) Amidite 1 x 10 g
G211110-01 DMT-2'O-Me-rG(ib) Amidite 1 x 10 g
G212110-01 DMT-2'O-Me-rG(tac) Amidite 1 x 10 g
U211110-01 DMT-2'O-Me-rU Amidite 1 x 10 g
23
Products
Final: Cleavage/Deprotection
1. Deblocking 2. Activation and Coupling

HO Bas e
D MT O Bas e O
O
DMT O Bas e
O
O OC H 3
O OC H 3
Solid Support
Solid Support O OC H 3
N C P
Start next cycle: O N(iPr)2
1. Deblocking
D MT O Bas e
O
D MT O Base
O
O OCH 3
O P O
N C O OC H 3
O Bas e
O N C P
O O Bas e
O
4. Oxidation
O OC H 3
O OC H 3
Solid Support
O 3. Capping
Solid Support
C H3 C O Base
O
O OC H 3
Solid Support
The Synthesis Cycle
2'O-Methyl RNA Synthesis Base Protection
The synthesis cycle for 2'O-Methyl- Proligo Reagents’ 2'O-Methyl RNA monomers are
oligoribonucleotides consists of the same series of compatible with fast deprotection schemes that are
reactions as the cycle that is employed for DNA based on the application of aliphatic amines, such
monomers. However, the rate of coupling for 2'O- as methylamine. The adenosine and guanosine
Methyl RNA monomers is slower compared to that monomers are protected with the standard benzoyl
of DNA monomers (a coupling time of 6 minutes is and isobutyryl groups. The uridine monomer is
recommended for 2'O-Methyl RNA monomers unprotected at the base, and the cytidine monomer
compared to 90 seconds for DNA monomers). is protected with a TAC (tert-butylphenoxyacetyl)
group. This protecting group avoids transamination
With the exception of the 2'O-Methyl RNA monomers
side reactions at cytidines, when alkylamines are
and supports, RNA synthesis is accomplished with
employed in the deprotection reaction. AMA
the same reagents as DNA synthesis.
reagent (concentrated ammonia/40% aqueous
All 2'O-Methyl RNA phosphoramidites from Proligo methylamine 1/1, v/v) can be conveniently applied.
Reagents are diluted with dry acetonitrile.
2'O-Methyl RNA Supports

2'O-Methyl RNA Monomers
The supports for 2'O-Methyl oligoribonucleotide
2'O-Methyl RNA monomers feature methoxy synthesis consist of a 2'O-Methyl RNA nucleoside
groups at the 2'-position. The methoxy groups are covalently attached through the 3'-position to
perfectly stable in all conditions employed in the controlled pore glass (CPG). The pore size of
assembly of oligonucleotides by automated Proligo Reagents’ CPG for 2'O-Methyl oligoribo-
phosphoramidite synthesis, and in all standard nucleotide synthesis is 500Å. Proligo Reagents
alkaline deprotection conditions. offers ready-to-use synthesis columns for 2'O-Methyl
oligoribonucleotide synthesis at 1 mol scale.
24
Methods
1. Use anhydrous acetonitrile (water content ≤30

ppm) as diluent. It is important to maintain
anhydrous conditions while dissolving RNA
phosphoramidites in acetonitrile.
2. For use on Expedite instruments, add 10 ml of

acetonitrile to 0.5 g 2'O-Methyl RNA monomer,
to obtain a concentration of 50 mg/ml. For use
on ABI instruments, add 5 ml acetonitrile to
0.5 g 2'O-Methyl RNA monomer, to obtain a
concentration of 100 mg/ml.

4. Attach the dissolved phosphoramidite

to the appropriate position on the synthesizer.
5. Enter the sequence of the 2'O-Methyl

oligoribonucleotide you wish to synthesize. A
minimum coupling time of 6 minutes is
recommended for 2'O-Methyl RNA
phosphoramidites.

choose either DMT-On or DMT-Off
procedures. The coupling efficiency of 2'O-
Methyl RNA monomers may be determined
by standard dimethoxytrityl cation assays.
7. Cleave from the support and deprotect the

2'O-Methyl oligoribonucleotide with
concentrated ammonia at 55°C for 8 hours.
Alternatively, AMA reagent (concentrated
ammonia/40% aqueous methylamine 1/1, v/v)
can be employed for 10 minutes at 65°C.
8. The 2'O-Methyl oligoribonucleotide is now

ready for further processing, such as
desalting or purification with RP-HPLC, AX-
HPLC or gel-based methods. Purification of
fully-modified 2'O-Methyl RNA
oligonucleotides is simpler than in case of
RNA, as no special precautions are required
to prevent nucleolytic degradation
25
Products DMT-2'Fluoro Phosphoramidites
DMT-2'Fluoro Phosphoramidites
2’Fluoro Phosphoramidites are used to Analytical Specifications
synthesize oligonucleotides that are more Test 2'Fluoro-dC(ac) 2'Fluoro-dU
thermally stable and provide increased HPLC Purity ≥98.0% ≥98.0%

31 ≥99% ≥99%
nuclease resistance. P-NMR
Features of 2'Fluoro Phosphoramidites:

• Can be employed together with DNA or RNA
phosphoramidites
• Recommended deprotection conditions are 8

hours at 55°C using concentrated ammonia
solution, or with AMA for 10 minutes at 65°C DMT-2'Fluoro Phosphoramidites
• Synthesis of 2'Fluoro oligonucleotides is
C213281-01 DMT-2'Fluoro-dC(ac) Amidite, 89 1 x 0.25 g
similar to standard DNA synthesis, but
requires an elongated coupling time C213231-01 DMT-2'Fluoro-dC(ac) Amidite, ABI 1 x 0.25 g
(recommended is 3 minutes compared C213233-01 DMT-2'Fluoro-dC(ac) Amidite, ABI 1x1g

to 90 seconds for DNA monomers) U211281-01 DMT-2'Fluoro-dU Amidite, 89 1 x 0.25 g
• Consistent lot-to-lot high purity and U211231-01 DMT-2'Fluoro-dU Amidite, ABI 1 x 0.25 g
performance U211233-01 DMT-2'Fluoro-dU Amidite, ABI 1x1g
• Manufactured under a certified ISO 9001 Please ask for delivery dates of these specialty amidites.
quality system
O
OMe
OMe O
HN
HN
N
O N
O N
MeO O MeO O
O O
O F O F
P O P O
N N
CN CN
DMT-2'Fluoro-dC(ac) Amidite DMT-2'Fluoro-dU Amidite
26
Labels and Modifications
Labels and Modifications

Phosphoramidite technology is ideally suited for
the modification of synthetic oligonucleotides
with covalently attached reporter moieties,
linkers, spacers or haptens. SAFC Supply
Solutions provides popular reporters and linkers
ready to use for DNA/RNA synthesis machines
such as ß-cyanoethyl phosphoramidites.
Fluorescein Phosphoramidite Biotin Phosphoramidite

Fluorescein phosphoramidite is composed of a Biotin-labeled oligonucleotides have become
protected fluorescein molecule linked to a extremely popular in DNA capture and detection
ß-cyanoethylphosphoramidite. The fluorescein applications, due to their very high-sensitivity and
derivative consists of two isomers derived from 5- strong, specific binding affinity with avidin and
and 6-carboxy fluorescein. As a result, two peaks streptavidin proteins. Biotin-based detection
will be seen on a RP-HPLC chromatogram of the methods and are widely used by researchers.
synthesis product. Biotin labeling is compatible with PCR and most
hybridization techniques.
Key Features of the Fluorescein

Phosphoramidite Key Features of the Biotin Phosphoramidite
• Readily soluble in acetonitrile • Behaves like any standard amidite on
the DNA synthesizer
• Couples to the 5'-end of the oligonucleotide
using standard synthesis protocols • Readily soluble in acetonitrile
• Protecting groups on the fluorescein moiety are • Biotin compound has a dimethoxytrityl (DMT)
removed under standard conditions of cleavage group on the ring structure, which allows
and deprotection with concentrated ammonia coupling-yield determination and trityl-selective
purification
• A detritylation step is not required since the
fluorescein phosphoramidite does not contain a • A long, water-compatible linker arm ensures
dimethoxytrityl(DMT-) group maximum sensitivity
• The labeled oligonucleotide is ready for use • Provides a coupling efficiency of at least 95%
in most applications after the evaporation of
ammonia. Standard procedures can be used if
additional purification is required
• The fluorescein moiety provides a purification

handle in RP-HPLC purification
27
Products Labels and Modifications
Amino Linkers The MMT-group of ssH-linker serves as an

excellent purification handle after the
Amino linkers can be employed to conjugate
oligonucleotide synthesis in trityl-on mode, similar
biotin, fluorescein or other modifiers and reporter
to the DMT-group of conventional oglionucleotides.
groups to the 5'end of oligonucleotides, or to
The MMT-group is cleaved under very mild
attach oligonucleotides to surfaces. SAFC Supply
conditions in aqueous acetic acid (10% glacial
Solutions offers 2 monomethoxytrityl-protected
acetic acid in water, 20 min. room temp.)
amino linkers (MMT-linkers) and 2 trifluoroacetyl
Alternatively, the MMT-group can be cleaved on the
protected amino linkers (TFA linkers):
synthesis instrument with acidic deblock solution
• Trifluoroacetyl (TFA)-protected pentyl (C5) to enable on-support labeling protocols.
amino linker
• Trifluoroacetyl (TFA)-protected hexyl (C6) Key features of amino linkers

amino linker
• Completely soluble in acetonitrile
• Monomethoxytrityl (MMT)-protected
• Base-labile TFA- as well as acid-labile MMT-
amino linker
protecting groups on the amino linker
• ssH-linker: the next generation of
• Amino linker products are coupled with
MMT linker
standard synthesis protocols, identical
to the coupling of DNA monomer
Monomethoxytrityl (MMT)-protected amino phosphoramidites
linker
• No change in auxiliary synthesis reagents is required
The MMT-group can be cleaved on the synthesis
• The MMT-amino linker features a lipophilic
instrument with acidic deblock solution to enable
group which aids in purification of the modified
on-support labeling protocols. Alternatively, the
oligonucleotide after synthesis
MMT-amino linker can be attached in the trityl-on
mode of the instrument to provide purification • The acid-labile MMT-group permits the colorimetric
handle similar to the DMT-group of the con- determination of the coupling efficiency
ventional oligonucleotides. The MMT-group is then
• It is recommended to deprotect
removed with aqueous acid after purification with
MMT-amino linker oligonucleotides
either RP-HPLC or a purification cartridge.
in concentrated ammonia at a lower
temperature e.g., at 40°C for 24 hours
Trifluoroacetyl (TFA)-protected amino linker
• The MMT-group can be removed from the
The base-labile TFA-group is easily removed with oligonucleotide at room temperature
concentrated ammonia during the cleavage and
- in case of MMT-amino linker with 80%
deprotection step. Additional deprotection steps
aqueous acetic acid in 3 hours
are not necessary.
- in case of ssH-linker with 10% aqueous acetic
acid in 20 minutes
ssH-linker
• TFA-amino linker is completely deprotected
ssH-linker comprises an internal carbamate group,
with concentrated ammonia. Additional
which is attached to the MMT-protected amino
deprotection steps are not necessary
group via a short spacer. The carbamate molety
facilitates the cleavage of the MMT-group under
mildly acidic conditions while increasing the
stability of the MMT-group during the deprotection
of the oligonucleotide with ammonia. The
carbamate group also enhances the reactivity of
the amino group through a neighbor group effect,
and thereby accelerates conjugations to amino-
reactive modifiers and reporters.
28
Key features of ssH-linker: Labels and Modifications
• Advantages over conventional amino linkers Compatible with Expedite and Polygen Instruments

- Deprotection of the amino-group under
M010982-01 ssH-Linker 1 x 0.25 g
exceptionally mild conditions which avoid
depurination side reaction M010882-01 TFA Hexylaminolinker 1 x 0.25 g
M010181-01 Fluorescein Amidite 1 x 0.1 g

- Deprotection with 10% aqueous acetic acid at
ambient temperature for 20 minutes M010282-01 MMT-Hexylamine-Linker Amidite 1 x 0.25 g
M010381-01 Biotin Amidite 1 x 0.1 g

- Better labeling efficiency than C6-amino linkers
- Higher coupling efficiency than C6-amino linkers
M010682-01 TFA Pentylaminolinker Amidite 1 x 0.25 g
- Better trityl-on purification efficiency Compatible with ABI Instruments

M010932-01 ssH-Linker 1 x 0.25 g
• General features
M010832-01 TFA Hexylaminolinker Amidite 1 x 0.25 g
- Excellent coupling efficiency
M010131-01 Fluorescein Amidite 1 x 0.1 g
- Used with standard deblock, activator, M010232-01 MMT-Hexylamine-Linker Amidite 1 x 0.25 g
oxidizer and capping-solutions
M010632-01 TFA Pentylaminolinker Amidite 1 x 0.25 g
Custom products
Phosphoramidites of non-catalog linkers, reporters or
modifiers are offered as custom synthesis products.
Fluorescein Phosphoramidite Biotin Phosphoramidite
MMT-Amino Linker TFA Pentyl Amino Linker
TFA Hexyl Amino Linker ssH-Linker
29
Fluorescein Phosphoramidite
Storage: ≤-10°C
Fluorescein-ß-Cyanoethylphosphoramidite
Method
1. Use anhydrous acetonitrile (water content ≤30 7. Proceed as you would with a standard DNA
ppm) to dissolve the fluorescein oligonucleotide synthesis. Note that fluorescein
phosphoramidite. It is important to maintain phosphoramidite from Proligo Reagents does
anhydrous conditions when dissolving the not contain a DMT group. Oligonucleotides do
fluorescein phosphoramidite in acetonitrile. not need to be detritylated at the end of the
synthesis. Note that the fluorescein phospho-
2. For use on Expedite instruments, add 2 ml ramidite will terminate the synthesis and can
acetonitrile to 0.1 g fluorescein phospho- only be employed in the last coupling step on
ramidite (M010181-01) to obtain a con- the 5' terminus.
centration of 50 mg/ml. For use on ABI
instruments, add 1.2 ml acetonitrile to 0.1 g 8. Cleave and deprotect the oligonucleotide with
fluorescein phosphoramidite (M010131-01) to ammonia at 55°C for 8 hours with standard
prepare a 0.1 M solution. protected nucleobases, or, if TAC-protected
phosphoramidites are used, at 55°C for 15
3. Gently swirl the vial until the powder is minutes. The fluorescein-moiety is stable
completely dissolved. under these conditions.
4. Once the fluorescein phosphoramidite has 9. The oligonucleotide is now ready for further
been dissolved and placed on your instru- processing, such as desalting or purification
ment, it should be used within 4 days. If you with RP-HPLC, AX-HPLC or gel-based methods.
do not plan to use all of the material in 4 days, The fluorescein label allows the purified fraction
remove the vial, seal carefully and store at – to be easily detected during collection.
20°C until needed.
10. Oligonucleotides labeled with fluorescein
5. Attach the dissolved phosphoramidite to the should be stored in the dark.
6. Enter the sequence of the oligonucleotide

you wish to synthesize with fluorescein
phosphoramidite at the 5'-end. A minimal
coupling time of 3 minutes is recommended
for fluorescein phosphoramidite.
30
Biotin Phosphoramidite
Chemical Formula C46H64N5O8PS
Storage: ≤-10°C
DMT-Biotin-ß-Cyanoethylphosphoramidite
Method
1. Use anhydrous acetonitrile (water content ≤30 7. Enter the sequence of the oligonucleotide you
ppm) to dissolve the biotin phosphoramidite. wish to synthesize with biotin phospho-
It is important to maintain anhydrous ramidite at the 5'-end. The coupling time for
conditions when dissolving the biotin biotin phosphoramidite is the same as that
phosphoramidite in acetonitrile. recommended by the instrument manu-
facturer for the four standard DNA phospho-
2. For use on Expedite instruments, add 2 ml ramidites A, C, G and T. Note that the biotin
acetonitrile to 0.1 g biotin phosphoramidite phosphoramidite will terminate the synthesis
(M010381-01) or 5ml acetonitrile to 0.25 g and can only be employed in the last
biotin phosphoramidite (M010382-01) to coupling step on the 5' terminus.
obtain a concentration of 50 mg/ml. For use
on ABI instruments, add 1ml acetonitrile to 8. Proceed as you would with a standard DNA
0.1 g biotin phosphoramidite (M010331-01), oligonucleotide synthesis. Depending on your
or, to obtain a concentration of 100 mg/ml, intended further usage of the oligomer, you
add 2.5 ml acetonitrile to 0.25 g biotin can either choose DMT-On, or, DMT-Off
phosphoramidite (M010332-01). procedures. The coupling efficiency of the
biotin phosphoramidite may be determined
3. Gently swirl the vial until the powder is by a standard dimethoxytrityl cation assay.
9. We recommend to elongate the last acidic
4. Once the biotin phosphoramidite has been deblocking step, for the release of the DMT-
dissolved and placed on your instrument, it group on the biotin moiety, in DMT-Off mode.
should be used within 48 hours. If you do not A deprotection time of 5 minutes is sufficient.
plan to use all of the material in 48 hours,
remove the vial, seal carefully and store at 10. Cleave and deprotect the oligonucleotide with
–20°C until needed. ammonia at 55°C for 8 hours with standard
protected nucleobases, or, if TAC-protected
5. Biotin phosphoramidite is supplied in V-vials phosphoramidites are used, at 55°C for 15
for the Expedite instrument. A new end-line minutes. Biotin phosphoramidite from Proligo
filter should be installed prior to placing the Reagents is compatible with standard and
phosphoramidite on a Expedite instrument. fast deprotection schemes. The biotin moiety
The tubing length can be shortened by maintains its biological activity after it is
cutting the tubing to fit the V-vial. processed using standard workup conditions.
6. Attach the dissolved phosphoramidite to the 11. The oligonucleotide is now ready for further
appropriate position on the synthesizer. processing, such as desalting or purification
Ensure that the delivery line to the synthesis with RP-HPLC, AX-HPLC or gel-based methods.
31
ssH-Linker
Formula Weight : 676,83
Storage : ≤-10°C
Method
1. Use anhydrous acetonitrile (water content 30 7. After synthesis in Trityl-Off mode the
ppm) to dissolve the ssH-linker.* It is oligonucleotide is ready for on-support
important to maintain anhydrous conditions labeling. Perform the labeling reaction by
during liquid transfer and dissolution. incubating the support in the respective
reaction mixture and wash the support
2. For use on Expedite instruments, add 5ml appropriately.**
acetonitrile to 0.25 g ssH-linker (M010982-01)
to obtain a concentration of 50 mg/ml. For 8. Cleave and deprotect the oligonucleotide
use on ABI® instruments, add 3.7 ml with ammonia at 40°C for 24 hours with
acetonitrile to 0.25 g ssH-linker (M010932-01) standard protected nucleobases, or, if
to prepare a 0.1 M solution. TAC-protected phosphoramidites are used,
at 55°C for 15 minutes.
3. The ssH-linker is a viscous oil that requires
more time to dissolve than powdered 9. The oligonucleotide is now ready for further
phosphoramidites. Gently swirl the vial until processing, such as desalting or purification
the linker is completely dissolved. with RP-HPLC, AX-HPLC or gel-based
methods. MMT-protected ssH-linker
4. Attach the dissolved phosphoramidite to the oligonucleosides are particularly suitable for
appropriate position on the synthesizer. cartridge-based reverse phase purification.
chamber is sufficiently primed. 10. Oligonucleotides prepared in Trityl-On mode
are further deprotected by a treatment with
5. Enter the sequence of the oligonucleotide you 10% aqueous acetic acid for 20 minutes at
wish to synthesize with ssH-linker. room temperature. Acetic acid is removed by
The coupling time for ssH-linker is the same evaporation under vacuum. Free MMT
as that recommended by the instrument residues can be removed, if desired, by
manufacturer for the four standard DNA extraction of an aqueous solution of the
phosphoramidites A, C, G and T. Note that oligonucleotide with diethyl ether.
the ssH-linker will terminate the synthesis and * monomethoxytrityl
can only be employed in the last coupling ** During oligonucleotide deprotection in ammonia the amino group
step on the 5' terminus. should either be MMT-protected or conjugated to a reporter
group. Unprotected amino groups will react with the internal
6. Proceed as you would with a standard DNA carbamate linkage under deprotection conditions resulting in a
derivative which is unreactive to common labeling reagents.
intended further usage of the oligomer, you
can either choose Trityl-On or Trityl-Off
procedures. The coupling efficiency of the
ssH-linker may be determined by a mono-
methoxytrityl cation assay in Trityl-Off mode.
Standard deblock steps as used for the
removal of DMT-groups during oligonucleotide
chain assembly can be applied for the
removal of the MMT*-group in Trityl-Off mode.
32
MMT-Amino Linker Phosphoramidite
Storage: ≤-10°C
MMT-Aminohexanol-ß-Cyanoethylphosphoramidite
Method
1. Use anhydrous acetonitrile (water content ≤30 7. We recommend to elongate the last acidic
ppm) to dissolve the MMT-amino linker deblocking step, for the release of the MMT-
phosphoramidite. It is important to maintain group on the amino linker, in Trityl-Off mode.
anhydrous conditions when dissolving the A deprotection time of 5 minutes is sufficient.
linker compound in acetonitrile.
8. Upon synthesis in Trityl-Off mode, treat the
2. For use on Expedite instruments, add 5ml CPG-bound oligonucleotide with an excess of
acetonitrile to 0.25 g MMT-amino linker a 10% solution of triethylamine in acetonitrile
phosphoramidite (M010282-01) to obtain a for 10 minutes at room temperature and wash
concentration of 50 mg/ml. For use on ABI with acetonitrile. This procedure cleaves the
instruments, add 4.2 ml acetonitrile to 0.25 g cyanoethyl-protective groups from the
MMT-amino linker phosphoramidite phosphate moieties of the oligonucleotide
(M010232-01) to prepare a 0.1 M solution. and prevents side-reactions arising from the
alkylation of the primary amine.
3. The MMT-amino linker phosphoramidite is a
viscous oil that requires more time to dissolve 9. Cleave and deprotect the oligonucleotide
than powdered phosphoramidites. Gently swirl with ammonia at 40°C for 24 hours with
the vial until the linker is completely dissolved. standard protected nucleobases, or, if TAC-
protected phosphoramidites are used, at
4. Attach the dissolved phosphoramidite to the
55°C for 15 minutes.
Ensure that the delivery line to the synthesis 10. The oligonucleotide is now ready for further
chamber is sufficiently primed. processing, such as desalting or purification
with RP-HPLC, AX-HPLC or gel-based
5. Enter the sequence of the oligonucleotide you
methods. Cartridge-based reverse phase
wish to synthesize with MMT-amino linker
methods are suitable for oligonucleotides
phosphoramidite. The coupling time for MMT-
prepared with the MMT-amino linker
amino linker phosphoramidite is the same as
phosphoramidite in Trityl-On mode.
that recommended by the instrument
manufacturer for the four standard DNA 11. Oligonucleotides prepared in Trityl-On mode
phosphoramidites A, C, G and T. Note that the are further deprotected by a treatment with
MMT-amino linker phosphoramidite will terminate 80% acetic acid for 3 hours at room
the synthesis and can only be employed in the temperature. Acetic acid is removed by
last coupling step on the 5' terminus. vacuum centrifugation. Free MMT residues
can be removed, if desired, by extraction of
an aqueous solution of the oligonucleotide
with diethyl ether.
intended further usage of the oligomer, you
can either choose Trityl-On, or, Trityl-Off
procedures. The coupling efficiency of the
MMT-amino linker phosphoramidite may be
determined by a monomethoxytrityl cation
assay in Trityl-Off mode.
33
TFA-Pentylamino Linker Phosphoramidite TFA-Hexylamino Linker Phosphoramidite

Chemical Formula: C16H29F3N3O3P Chemical Formula: C17H31F3N3O3P
Trifluoroacetyl-Aminopentanol-ß-Cyanoethylphosphoramidite Trifluoroacetyl-Aminohexanol-ß-Cyanoethylphosphoramidite
Method
1. Use anhydrous acetonitrile (water content ≤30 6. Proceed as you would with a standard
ppm) to dissolve the TFA-amino linker DNA oligonucleotide synthesis using the
phosphoramidite. It is important to maintain Trityl-OFF mode.
anhydrous conditions when dissolving the 7. Treat the CPG-bound oligonucleotide with an
linker compound in acetonitrile. excess of a 10% solution of triethylamine in
2. For use on Expedite instruments, add 5 ml acetonitrile for 10 minutes at room temperature
acetonitrile to 0.25 g TFA-amino linker and wash with acetonitrile. This procedure
phosphoramidite (M010682-01) to obtain a cleaves the cyanoethyl-protective groups from
concentration of 50 mg/ml. For use on ABI the phosphate moieties of the oligonucleotide
instruments, add 6.3ml acetonitrile to 0.25 g and prevents side-reactions arising from the
TFA-amino linker phosphoramidite (M010632- alkylation of the primary amine.
01) to prepare a 0.1 M solution. 8. Cleave and deprotect the oligonucleotide with
3. The TFA-amino linker phosphoramidite is a ammonia at 55°C for 8 hours with standard
viscous oil that requires more time to dissolve protected nucleobases. If the conventional
than powdered phosphoramidites. Gently swirl isobutyryl (ib) protective group on dG is
the vial until the linker is completely dissolved. replaced with the dimethylformamidine (dmf)
group, a shorter deprotection time of 2 hours
4. Attach the dissolved phosphoramidite to the at 55°C may be used.
Ensure that the delivery line to the synthesis 9. The oligonucleotide is now ready for further
chamber is sufficiently primed. processing, such as desalting or purification
with RP-HPLC, AX-HPLC or gel-based
5. Enter the sequence of the oligonucleotide you methods. Note that cartridge-based reverse
wish to synthesize with the TFA-amino linker phase methods are not suitable for oligo-
phosphoramidite. The coupling time for the nucleotides prepared with the TFA-amino
TFA-amino linker phosphoramidite is the linker phosphoramidite.
same as that recommended by the instrument
manufacturer for the four standard DNA
phosphoramidites A, C, G and T. Note that the
TFA-amino linker phosphoramidite will terminate
the synthesis and can only be employed in the
last coupling step on the 5' terminus.
34
Non-Standard Nucleosides
Non-Standard Nucleosides Non-Standard Nucleosides

Several applications of synthetic oligonucleotides
are based on nucleosides with alternative
M113381-01 5-Methyl-dC(ac) Amidite 1 x 0.25 g
heterocycles. SAFC Supply Solutions provides
M111181-01 DMT-dInosine Amidite 1 x 0.25 g
phosphoramidites of selected non-standard
M110281-01 DMT-dUridine Amidite 1 x 0.25 g
nucleosides as catalog items and offers custom
synthesis services for proprietary monomers.
M113331-01 5-Methyl-dC(ac) Amidite 1 x 0.25 g
M111131-01 DMT-dInosine Amidite 1 x 0.25 g
M110231-01 DMT-dUridine Amidite 1 x 0.25 g
OCH3 Method
O
HN 1. Use anhydrous acetonitrile (water content ≤30

O N ppm) as diluent. It is important to maintain
CH3O O
O anhydrous conditions while dissolving
deoxyuridine phosphoramidite in acetonitrile.
O
N C P
2. For use on Expedite instruments, add 5ml
O N
acetonitrile to 0.25 g deoxyuridine
phosphoramidite (M110281-01) to obtain a
Deoxyuridine Phosphoramidite concentration of 50 mg/ml. For use on ABI
instruments, add 3.4 ml acetonitrile to 0.25 g
deoxyuridine phosphoramidite (M110231-01)
to prepare a 0.1 M solution.
Storage: ≤+10°C
DMT-Deoxyuridine-ß-Cyanoethylphosphoramidite
4. Attach the dissolved phosphoramidite to an


wish to synthesize with deoxyuridine
phosphoramidite. The coupling time for
deoxyuridine phosphoramidite is the same
as that recommended by the instrument
phosphoramidites A, C, G and T.

7. Cleave and deprotect the oligonucleotide with

ammonia at 55°C for 8 hours with standard
amidites are applied, at 55°C for
15 minutes. Deoxyuridine phosphoramidite
from Proligo Reagents is compatible with
standard and fast deprotection schemes,
including methylamine-derived deprotection
agents such as AMA.
8. The oligonucleotide is now ready for further

processing such as desalting or purification
with RP-HPLC, AX-HPLC or gel-based methods.
35
Products Non-Standard Nucleosides
OCH3
O
N NH
N N
CH3O O
O
O
N C P
O N
Deoxyinosine Phosphoramidite
Storage: ≤+10°C
DMT-Deoxyinosine-ß-Cyanoethylphosphoramidite
Method
1. Use anhydrous acetonitrile (water content ≤30 7. For oligonucleotides with a high content of
ppm) to dissolve the deoxyinosine deoxyinosine, we recommend to treat the
phosphoramidite. It is important to maintain CPG-bound oligonucleotide with an excess of
anhydrous conditions when dissolving the a 10% solution of triethylamine in acetonitrile
deoxyinosine phosphoramidite in acetonitrile. for 10 minutes at room temperature, followed
by washing with acetonitrile. This procedure
2. For use on Expedite instruments, add 5 ml cleaves the cyanoethyl-protecting groups
acetonitrile to 0.25 g deoxyinosine phos- from the phosphate moieties of the
phoramidite (M111181-01) to obtain a oligonucleotide and prevents minor side-
concentration of 50 mg/ml. For use on ABI reactions arising from the alkylation of the
instruments, add 3.3 ml acetonitrile to 0.25 g base of deoxyinosine phosphoramidite.
deoxyinosine phosphoramidite (M111131-01)
to prepare a 0.1 M solution. 8. Otherwise, cleave and deprotect the oligo-
nucleotide with ammonia at 55°C for 8 hours
3. Gently swirl the vial until the powder is with standard protected nucleobases, or, if
completely dissolved. TAC-protected phosphoramidites are used, at
4. Attach the dissolved phosphoramidite to the 55°C for 15 minutes. Our Deoxyinosine phos-
appropriate position on the synthesizer. phoramidite is compatible with standard and
Ensure that the delivery line to the synthesis fast deprotection chemistries, including
chamber is sufficiently primed. methylamine-derived deprotection agents
such as AMA.
5. Enter the sequence of the oligonucleotide
you wish to synthesize with deoxyinosine 9. The oligonucleotide is now ready for further
phosphoramidite. The coupling time for processing, such as desalting or purification
deoxyinosine phosphoramidite is the same with RP-HPLC, AX-HPLC or gel-based methods.

36
O
OCH3
HN CH3
CH3
N
O N
CH3 O O
O
O
N C P
O N
5-Methyl-dC(ac) Phosphoramidite
Storage: ≤-20°C
DMT-5-Methyl-Deoxycytidine(ac)-ß-Cyanoethylphosphoramidite
Method
1. Use anhydrous acetonitrile (water content ≤30 recommended by the instrument

ppm) to dissolve the 5-methyl-dC(ac) manufacturer for the four standard DNA
phosphoramidite. It is important to maintain phosphoramidites A, C, G and T.
anhydrous conditions when dissolving the 5-
methyl-dC(ac) phosphoramidite in acetonitrile.
2. For use on Expedite instruments, add 5 ml
7. Cleave and deprotect the oligonucleotide with
acetonitrile to 0.25 g 5-methyl-dC(ac) phos-
ammonia at 55°C for 8 hours with standard
phoramidite (M113381-01) to obtain a con-
centration of 50 mg/ml. For use on ABI
phosphoramidites are used, at 55°C for 15
instruments, add 3.2 ml acetonitrile to 0.25 g
minutes. 5-methyl-dC(ac) phosphoramidite
5-methyl-dC(ac) phosphoramidite (M113331-01)
from Proligo Reagents is compatible with
to prepare a 0.1 M solution.
standard and fast deprotection chemistries,
3. Gently swirl the vial until the powder is including methylamine-derived deprotection
completely dissolved. agents such as AMA.
4. Attach the dissolved phosphoramidite to the 8. The oligonucleotide is now ready for further
appropriate position on the synthesizer. processing, such as desalting or purification
Ensure that the delivery line to the synthesis with RP-HPLC, AX-HPLC or gel-based methods.

wish to synthesize with 5-methyl-dC(ac) phos-
phoramidite. The coupling time for 5-methyl-
dC(ac) phosphoramidite is the same as that
37
Products Phosphate-ON Phosphoramidite
Phosphate-ON Phosphoramidite Key Features of Phosphate-ON

Phosphoramidite
Phosphate-ON phosphoramidite is a chemical
• Fully compatible with standard phospho-
phosphorylation reagent that can be employed to
ramidite reagents and synthesis conditions
introduce a phosphate group at the 5' terminus
• Compatible with dG(dmf) fast deprotection
of an oligonucleotide. Chemical phosphorylation
chemistry: the oligonucleotide can be cleaved
is a cost-effective alternative to enzymatic
from the support and deprotected in con-
phosphorylation methods, allowing introduction centrated ammonia at 55°C in only 2 hours
of terminal phosphate groups in high yields, at
• Comprises a DMT-group for trityl monitoring
any desired scale.
• Dissolves easily in acetonitrile to a 0.1 M solution
SAFC Supply Solutions’ Proligo® Reagents offers
• Powder format enables dissolution to be easily
Phosphate-ON phosphoramidite in powder form,
monitored and facilitates product handling
enabling the dissolution of the reagent in acetonitrile
to be easily monitored. The application of the • High coupling efficiency of ≥98.0% under standard
reagent is fully compatible with standard cleavage DNA phosphoramidite coupling conditions
and deprotection procedures at the end of oligo-
• Cleavage of both phosphate protective groups
nucleotide synthesis. Our phosphate-ON
through a ß-elimination process
phosphoramidite comprises a thymidine nucleoside,
which is removed from the oligonucleotide during
the cleavage and deprotection process.
Key Features of 5'-Phosphorylated

Oligonucleotides
• Enables enzymatic ligation to the 3'-terminus of
nucleic acids
• Offers protection against exonucleolytic

degradation
• Provides oligonucleotide conjugation through

Phosphate-ON Phosphoramidite
activation with coupling reagents such as EDC
These features enable 5'-phosphorylated oligo- Catalog No. Description Unit
nucleotides to be used in applications such as
M010782-01 Phosphate-ON Amidite 1 x 0.25 g
molecular cloning and gene construction; ligase
chain reaction; template directed ligation; oligo-
nucleotide labeling with reporter groups, haptens M010732-01 Phosphate-ON Amidite 1 x 0.25 g
and other modifiers; and oligonucleotide stabilization. Other quantities available upon request.
38
Phosphate-ON Phosphoramidite
Storage: ≤-10°C
Method
1. Use anhydrous acetonitrile (water content ≤30 7. The phosphate-ON phosphoramidite is

ppm) as diluent. It is important to maintain designed for the phosphorylation of the 5'-end
anhydrous conditions while dissolving of the oligonucleotide and should only be
phosphate-ON phosphoramidite in employed in the last coupling step.
acetonitrile. 8. Proceed as you would with a standard DNA
2. For use on Expedite instruments, add 5 ml oligonucleotide synthesis. Depending on your
acetonitrile to 0.25 g phosphate-ON phos- further use of the oligomer, you can either
phoramidite (M010782-01) to obtain a choose DMT-On or DMT-Off procedures. The
concentration of 50 mg/ml. For use on ABI coupling efficiency of the phosphate-ON
instruments, add 2.5 ml acetonitrile to 0.25 g phosphoramidite may be determined by a
phosphate-ON phosphoramidite (M010732-01) standard dimethoxytrityl cation assay.
to obtain a concentration of 100 mg/ml. 9. Cleave and deprotect the oligonucleotide with
3. Gently swirl the vial until the powder is ammonia at 55°C for a minimum time of 2
completely dissolved. hours. Our phosphate-ON phosphoramidite is
compatible with a variety of deprotection
4. Once the phosphate-ON phosphoramidite conditions and base-protection schemes,
has been dissolved and placed on your including standard protective groups (ammonia
instrument, it should be used within 4 days. for 8 hours at 55°C), the incorporation of
If you do not plan to use all of the material in dimethylformamidine (dmf) protected guanidine
4 days, remove the vial, seal carefully, and monomers (ammonia for 2 hours at 55°C), and
store at –20°C until needed. the incorporation of tert-butylphenoxyacetyl
5. Attach the dissolved phosphoramidite to the (TAC) protected cytidine monomers (AMA
appropriate position on the synthesizer. reagent for 10 minutes at 65°C). If the DMT-On
Ensure that the delivery line to the synthesis modus is used, the DMT group will be removed
chamber is sufficiently primed. during the final cleavage and deprotection step.
6. Enter the sequence of the oligonucleotide 10. The oligonucleotide is now ready for further
you wish to synthesize with a phosphate processing such as desalting or purification
group at the 5'-end. The coupling time for with RP-HPLC, AX-HPLC or gel-based methods.
phosphate-ON phosphoramidite is the same
39
Products NPPOC Phosphoramidites
NPPOC Phosphoramidites NPPOC Phosphoramidites

Phosphoramidites with a NPPOC 5'-protection
A112N01-01 NPPOC-dA(tac) Amidite 1x1g
group can be used for the production of DNA
C114N01-01 NPPOC-dC(ib) Amidite 1x1g
microarrays using photolithographic in situ
G114N01-01 NPPOC-dG(ipac) Amidite 1x1g
synthesis of oligonucleotides directly on the
T111N01-01 NPPOC-dT Amidite 1x1g
chip. This method offers the possibility to
Please ask for delivery dates of these specialty amidites.
produce DNA chips of extremely high density
and provides a flexible system.
Features of NPPOC Chemistry:

• Efficient photolytic deprotection (> 99%)
• Less side products during photolysis
• Products available
• Lot-to-lot consistent high purity and

performance
• Manufactured under a certified ISO 9001

quality system
Analytical Specifications
Test A C G T
HPLC Purity ≥96.0% ≥96.0% ≥96.0% ≥96.0%
31 ≥96% ≥96% ≥96% ≥96%
P-NMR
O O
O
HN HN
N N
O N
O
N N O N
O O O O
O O
NO2 NO2
O O
P O P O
N N
CN CN
NPPOC-dA(tac) Amidite NPPOC-dC(ib) Amidite
O O
N HN
O NH O O
N O O N
O O N N O O
O H O
NO2 NO2
O O
P O P O
N N
CN CN
NPPOC-dG(ipac) Amidite NPPOC-dT Amidite
40
User Instructions
1. Liquid Reagents 2. Coupling
Deblock — The NPPOC-protective group is NPPOC-amidites are dissolved in ACN at the

removed with light while the support-anchored concentration recommended for standard DNA
oligonucleotide is immersed in a liquid reagent; amidites by the manufacturer of the DNA/RNA
various formulations are applicable, our recom- synthesizer. The coupling times of NPPOC-
mended formulations are 1% NMI in DMSO (v/v) or Amidites match the coupling times of standard
1% NMI in ACN (v/v) Activator — Any commercial DNA amidites (30 to 60 sec., longer coupling times
activator that works for DNA-amidites is applicable; are applicable, but not necessary).
0.25 M DCI in ACN is perfect
Oxidizer — Although any commercial oxidizer is 3. Deprotection of NPPOC-groups

applicable some customers use flow cells that are Light with a wavelength between 350 and 390 nm is
incompatible with THF and therefore prefer to use an applicable. The deprotection time depends on the
oxidizer wherein the solvent THF is replaced by ACN light intensity. 90 sec. illumination time is sufficient
Cap A — Fast Cap A is recommended (TAC- at 100 mW/cm2 on the surface of the synthesis
anhydride solution); some customers use flow cells support (365 nm Hg/Xe high pressure lamp).
that are incompatible with THF and therefore prefer
to use a Cap A reagent wherein the solvent THF is 4. Deprotection of base protective groups
replaced by ACN; some customers do not employ
capping steps with NPPOC-chemistry Any fast deprotection protocol (e.g., conc.
ammonia/room temp./2 hours or AMA/room
Cap B — Cap B solutions that are compatible with temp./30 min.) is applicable. However, such
Fast Cap A; some customers use flow cells that treatment will partly remove the oligonucleotides
are incompatible with THF and therefore prefer to from silica surfaces and therefore a milder
use a Cap B reagent wherein the solvent THF is treatment with a mixture of ethylendiamine and
replaced by ACN ethanol 50/50, v/v, for 2 hours at room temperature
is used as an industry standard.
41
Products Controlled Pore Glass and Columns — CPG Free Flow
Controlled Pore Glass Analytical Parameters of CPG

CPG (UHL) CPG 500Å CPG 1000Å
Since Professor Merrifield first described solid
Pore size (nm) 33 50 100
phase synthesis, researchers have investigated
Pore volume (ml/g) 1.3 1.0 1.3
numerous supports for the chemical synthesis
Grain size (m) 100–180 100–180 100–180
of DNA. Controlled Pore Glass (CPG) has
Surface (m2/g) ~100 ~60 ~30
proven to be the most accepted standard, with
features such as high surface area, efficient
mass transfer and chemical inertness. Nucleoside-Loaded CPG
Loading mol/g
Because the pore density of CPG can be adjusted,
CPG 500Å 30–40
the solid support can be tailored to the size of the
CPG 1000Å 25–35
synthetic oligonucleotide required. Bigger pore
size is typically preferable in minimizing steric CPG UHL 50–70
effects during the synthesis of long oligo- CPG UHL 90–110

nucleotides, while smaller pore size fosters
improved synthesis consistency.
Fast Deprotection CPG
Our process guarantees consistent production of
CPGs to specifications designed for DNA synthesis.
C303001-01 CPG 500Å dC(ac) 30-40 mol/g 1x1g
All products are tested in our Quality Control labs
C303010-01 CPG 500Å dC(ac) 30-40 mol/g 1 x 10 g
for purity and identity prior to release.

DNA CPG
A302001-01 CPG 500Å dA(tac), 30-40 mol/g 1x1g
C302001-01 CPG 500Å dC(tac), 30-40 mol/g 1x1g
A301001-01 CPG 500Å dA(bz), 30-40 mol/g 1x1g
G302001-01 CPG 500Å dG(tac), 30-40 mol/g 1x1g
C301001-01 CPG 500Å dC(bz), 30-40 mol/g 1x1g
G301001-01 CPG 500Å dG(ib), 30-40 mol/g 1x1g
T301001-01 CPG 500Å dT 30-40 mol/g 1x1g
A301010-01 CPG 500Å dA(bz), 30-40 mol/g 1 x 10 g
C302010-01 CPG 500Å dC(tac), 30-40 mol/g 1 x 10 g
C301010-01 CPG 500Å dC(bz), 30-40 mol/g 1 x 10 g
G301010-01 CPG 500Å dG(ib), 30-40 mol/g 1 x 10 g
G305001-01 CPG 500Å dG(dmf), 30-40 mol/g 1x1g
T301010-01 CPG 500Å dT 30-40 mol/g 1 x 10 g
G305010-01 CPG 500Å dG(dmf), 30-40 mol/g 1 x 10 g
A401001-01 CPG 1000Å dA(bz), 25-35 mol/g 1x1g
C401001-01 CPG 1000Å dC(bz), 25-35 mol/g 1x1g
G401001-01 CPG 1000Å dG(ib), 25-35 mol/g 1x1g Fast Deprotection RNA CPG
T401001-01 CPG 1000Å dT 25-35 mol/g 1x1g Catalog No. Description Unit
A602001-01 CPG 500Å rA(tac), 25-35 mol/g 1x1g
C602001-01 CPG 500Å rC(tac), 25-35 mol/g 1x1g
G602001-01 CPG 500Å rG(tac), 25-35 mol/g 1x1g
U601001-01 CPG 500Å rU, 25-35 mol/g 1x1g
T401010-01 CPG 1000Å dT 25-35 mol/g 1 x 10 g
Customized packaging 2’0-Methyl RNA CPG

CPG-products can be provided with higher Catalog No. Description Unit
loadings based on UHL-CPG (50–70 mol/g or A601101-01 CPG 500Å 2'O-Methyl-rA(bz), 30-40 mol/g 1x1g
9 0 –110 mol/g), please inquire. C602101-01 CPG 500Å 2'O-Methyl-rC(tac), 30-40 mol/g 1x1g
G601101-01 CPG 500Å 2'O-Methyl-rG(ib), 30-40 mol/g 1x1g
U601101-01 CPG 500Å 2'O-Methyl-rU, 30-40 mol/g 1x1g
42
Columns for Synthesizers
Columns for Synthesizers DNA Columns

Compatible with Expedite Instruments
In addition to our CPG free flow oligonucleotide
synthesis supports, we offer ready to use
A311010-01 Column CPG 500Å dA(bz), 50 nmol 1 x 100
synthesis columns filled with CPG or polystyrene
C311010-01 Column CPG 500Å dC(bz), 50 nmol 1 x 100
support. These columns are designed for use on
G311010-01 Column CPG 500Å dG(ib), 50 nmol 1 x 100
a wide range of synthesizers for high quality
T311010-01 Column CPG 500Å dT, 50 nmol 1 x 100
oligonucleotide synthesis. Our columns are
A321010-01 Column CPG 500Å dA(bz), 0.2 mol 1 x 100
produced at our high quality standard in order
C321010-01 Column CPG 500Å dC(bz), 0.2 mol 1 x 100
to be compliant in the required application and
G321010-01 Column CPG 500Å dG(ib), 0.2 mol 1 x 100
compatible with standard synthesis protocols.
T321010-01 Column CPG 500Å dT, 0.2 mol 1 x 100
A331010-01 Column CPG 500Å dA(bz), 1 mol 1 x 100
Expedite columns C331010-01 Column CPG 500Å dC(bz), 1 mol 1 x 100
• Filled with CPG 500Å and CPG 1000Å G331010-01 Column CPG 500Å dG(ib), 1 mol 1 x 100
T331010-01 Column CPG 500Å dT, 1 mol 1 x 100

• For Expedite 89er series only
• Crimped
• Color coded label G421010-01 Column CPG 1000Å dG(ib), 0.2 mol 1 x 100
Cyclopeadic columns for ABI and A431010-01 Column CPG 1000Å dA(bz), 1 mol 1 x 100
Expedite synthesizer C431010-01 Column CPG 1000Å dC(bz), 1 mol 1 x 100
• Filled with CPG 500Å and CPG 1000Å G431010-01 Column CPG 1000Å dG(ib), 1 mol 1 x 100
• Available in 50 nmol, 0.2 mol and 1 mol T431010-01 Column CPG 1000Å dT, 1 mol 1 x 100
Compatible with Expedite & ABI Instruments

• No leakage (no crimping)
A341010-01 Column CPG 500Å dA(bz), 50 nmol, ABI/89 1 x 100
• One column body
C341010-01 Column CPG 500Å dC(bz), 50 nmol, ABI/89 1 x 100
• Color coded body, limits the wrong use of base G341010-01 Column CPG 500Å dG(ib), 50 nmol, ABI/89 1 x 100
in synthesis
T341010-01 Column CPG 500Å dT, 50 nmol, ABI/89 1 x 100
A351010-01 Column CPG 500Å dA(bz), 0.2 mol, ABI/89 1 x 100

Columns for ABI 3900 synthesizers C351010-01 Column CPG 500Å dC(bz), 0.2 mol, ABI/89 1 x 100
• Filled with Polystyrene G351010-01 Column CPG 500Å dG(ib), 0.2 mol, ABI/89 1 x 100
• For ABI 3900 synthesizers only T351010-01 Column CPG 500Å dT, 0.2 mol, ABI/89 1 x 100
A361010-01 Column CPG 500Å dA(bz), 1 mol, ABI/89 1 x 100

• Available in 40 nmol, 0,2 mol
C361010-01 Column CPG 500Å dC(bz), 1 mol, ABI/89 1 x 100
• Polystyrene 40 is comparable with CPG 1000Å
G361010-01 Column CPG 500Å dG(ib), 1 mol, ABI/89 1 x 100
• Color coded body, limits the wrong use of base
T361010-01 Column CPG 500Å dT, 1 mol, ABI/89 1 x 100
in synthesis
C451010-01 Column CPG 1000Å dC(bz), 0.2 mol, ABI/89 1 x 100

RNA columns for ABI synthesizers
G451010-01 Column CPG 1000Å dG(ib), 0.2 mol, ABI/89 1 x 100
• Filled with CPG 500Å T451010-01 Column CPG 1000Å dT, 0.2 mol, ABI/89 1 x 100
• For ABI 39X/3400 synthesizers only A461010-01 Column CPG 1000Å dA(bz), 1 mol, ABI/89 1 x 100
• Crimped C461010-01 Column CPG 1000Å dC(bz), 1 mol, ABI/89 1 x 100

• Color coded label
T461010-01 Column CPG 1000Å dT 0.2 mol, ABI/89 1 x 100
RNA columns for Expedite synthesizers

• Filled with CPG 500Å and CPG 1000Å
• For ABI 39X/3400 synthesizers only
• Crimped
• Color coded label
43
Products Columns for Synthesizers
DNA Columns (cont.)

Compatible with ABI 3900 Instruments
A911010-01 Column Polystyrene 40 dA(bz), 40 nmol, 1 x 100
ABI 3900
C911010-01 Column Polystyrene 40 dC(bz), 40 nmol, 1 x 100
ABI 3900
G915010-01 Column Polystyrene 40 dG(dmf), 40 nmol, 1 x 100
ABI 3900
T911010-01 Column Polystyrene 40 dT, 40 nmol, ABI 3900 1 x 100
A921010-01 Column Polystyrene 40 dA(bz), 0.2 µmol, 1 x 100

ABI 3900
C921010-01 Column Polystyrene 40 dC(bz), 0.2 µmol, 1 x 100
ABI 3900
G925010-01 Column Polystyrene 40 dG(dmf), 0.2 µmol, 1 x 100
ABI 3900
T921010-01 Column Polystyrene 40 dT, 0.2 µmol, ABI 3900 1 x 100
Fast Deprotection RNA Columns

A632004-01 Column CPG 500Å rA(tac), 1 mol 1x4
C632004-01 Column CPG 500Å rC(tac), 1 mol 1x4
G632004-01 Column CPG 500Å rG(tac), 1 mol 1x4
U631004-01 Column CPG 500Å rU, 1 mol 1x4

A662004-01 Column CPG 500Å rA(tac), 1 mol 1x4
C662004-01 Column CPG 500Å rC(tac), 1 mol 1x4
G662004-01 Column CPG 500Å rG(tac), 1 mol 1x4
U661004-01 Column CPG 500Å rU, 1 mol 1x4
2’0-Methyl RNA Columns

A631104-01 Column CPG 500Å 2'O-Me-rA(bz), 1 mol 1x4
C632104-01 Column CPG 500Å 2'O-Me-rC(tac), 1 mol 1x4
G631104-01 Column CPG 500Å 2'O-Me-rG(ib), 1 mol 1x4
U631104-01 Column CPG 500Å 2'O-Me-rU, 1 mol 1x4

A661104-01 Column CPG 500Å 2'O-Me-rA(bz), 1 mol 1x4
C662104-01 Column CPG 500Å 2'O-Me-rC(tac), 1 mol 1x4
G661104-01 Column CPG 500Å 2'O-Me-rG(ib), 1 mol 1x4
U661104-01 Column CPG 500Å 2'O-Me-rU, 1 mol 1x4
44
Amino-ON CPG
Amino-ON CPG Amino-ON CPG

Bulk CPG
Amino-ON CPG can be employed to conjugate
biotin, fluorescein or other modifiers and
M020101-01 Amino-ON CPG 500Å, 30-40 mol/g 1 x 0.25 g
reporter groups to the 3'-end of oligonucleotides
M020111-01 Amino-ON CPG 500Å, 30-40 mol/g 1x1g
or to attach oligonucleotides to surfaces. SAFC
Supply Solutions’ Proligo Reagents Amino-ON
CPG combines the advanced features of
cleavage and deprotection under mild
conditions, and maintenance of the integrity of
the 3'-modification with high synthesis yields.
Key Features of 3'-Amine

Oligonucleotides
• Selective conjugation to reporter groups,
purification handles or other modifiers
• 3'-end attachment to electrophilic surfaces
• Offers protection against exonucleolytic

degradation
These features enable 3'-Amine oligonucleotides to

be used in applications such as 3'-labeling with
base sensitive dyes; 3'-biotin modifications; dual-
labeled probes (eg TaqMan probes and Molecular
beacons); and microarray spotting.
Key Features of Amino-ON CPG

• Introduces a primary amino group attached to a
C6-linker
• Fully compatible with standard phospho-

ramidite reagents and synthesis conditions
• Can be used with DNA, RNA and Locked Nucleic

Acid® (LNA); 5'-oligonucleotide modifications
such as fluorescein or biotin; and with the
synthesis of thioated DNA oligonucleotides
• Compatible with dG(dmf) fast deprotection

chemistry: the oligonucleotide can be cleaved
from the support and deprotected in con-
centrated ammonia at 55°C in 2 hours
• Provides all the advantages of homogeneous

pore size porous glass supports
• Standard pore size of 500Å
• Loading of 30–40 mol/g
• Coupling performance of ≥99.0%

stepwise efficiency
• DMT-protected in the same way as standard

nucleoside-loaded CPG
45
Products Amino-ON CPG
Cleavage and deprotection
The cleavage and deprotection of oligonucleotides

on amino-ON CPG can be performed with a variety
of reagents. We have successfully applied the
following reagents and conditions to simul-
taneously deprotect the hexylamino group and the
oligonucleotide:
• concentrated ammonia at 55°C for 2 hours or
• 40% aqueous methylamine/concentrated

ammonia 1/1, v/v, at 65°C for 10 minutes
Amino-ON CPG 500Å
Loading 30-40 mol/g
Method
Storage: ≤-10°C
1. Attach the amino-ON CPG to the synthesizer
in the same way as a nucleoside loaded CPG.
SAFC Supply Solutions’ Proligo Reagents Amino-ON
CPG can be employed to introduce a covalently
wish to synthesize. Note that the 3'-nucleoside
bound, primary amino group at the 3'-end of any
of the oligonucleotide sequence must be
oligonucleotide. Amino-ON CPG comprises a
included in the bases to be attached to the
protected hexylamino group. The free amine is
support during the synthesis. This can be
liberated under the alkaline conditions that are
achieved with a dummy nucleoside unit for the
employed to cleave and deprotect the oligonucleotide
3'-end of the sequence, e.g., add a thymidine
on the support, while the hexylamino group remains
unit to the 3'-end of the sequence.
attached to the oligonucleotide. The amino-ON CPG
further comprises a DMT-protective group, which is 3. Proceed as you would with a standard
removed in the first synthesis cycle similar to the DMT- oligonucleotide synthesis. Depending on your
group of standard nucleoside loaded CPG. intended further use of the oligomer you can
either choose DMT-On or DMT-Off procedures.
The synthesis of oligonucleotides is conducted in
the same manner as with nucleoside-loaded CPG, 4. The first deblocking step proceeds with the
without changes in any of the reagents of the usual release of the orange colour of the
synthesis. The only differences in the preparation dimethoxytrityl cation and may be utilized in
of oligonucleotides using Proligo Reagents’ amino- trityl monitoring procedures.
ON CPG are as follows:
5. Cleave and deprotect the oligonucleotide on
• the 3'-base of the oligonucleotide to be the support using one of the conditions listed
synthesized is not attached to the support: this under “Cleavage and deprotection” above.
base must be added in the first synthesis cycle
6. Transfer the supernatant solution of the
• there is a simple modification to the cleavage oligonucleotide from the support into a
and deprotection conditions, as detailed below separate vial. The yield of the oligonucleotide
can be further improved by rinsing the
Amino-ON CPG can be employed in the same
support with water and combining the
manner to prepare 3'-amino DNA, RNA, LNA or
2’O-Methyl oligonucleotides. It can be applied with
5'-biotin, fluorescein and other oligonucleotide
modifications, and for the synthesis of thioated 7. The oligonucleotide is now ready for further
DNA oligonucleotides. processing, such as desalting or purification
Proligo Reagents offers amino-ON CPG in bulk,
with a pore size of 500Å.
46
Universal CPG
Universal CPG Universal CPG

Universal CPG from SAFC Supply Solutions
M301001-01 Universal CPG 500Å, 30-40 mol/g 1x1g
can be employed in the synthesis of any
M301010-01 Universal CPG 500Å, 30-40 mol/g 1 x 10 g
oligonucleotide sequence instead of
M401001-01 Universal CPG 1000Å, 25-35 mol/g 1x1g
conventional nucleoside loaded CPG —
M401010-01 Universal CPG 1000Å dT 25-35 mol/g 1 x 10 g
whether loaded with adenosine, cytidine,
guanosine or thymidine nucleosides. The use
of universal CPG releases your resources as
the purchase, handling and storage of
O
differentially loaded types of nucleoside-CPG
CPG N NH
O
is not required, eliminating 3'-end synthesis
N N
errors, because of accidental interchange of S p ac e r N O
H O
polymeric supports.
O O
Key Features of Universal CPG OCH3
Fully compatible with standard phosphoramidite Universal CPG

reagents and synthesis conditions Universal CPG 500Å Loading 30-40 mol/g
Universal CPG 1000Å Loading 25-35 mol/g

Can be employed in the synthesis of many
different types of oligonucleotides: Storage: ≤+10°C
• DNA oligonucleotides
• Phosphorothioates
• 2'O-Methyl oligonucleotides
• Fluorescein, tetrachloro-fluorescein and

biotin modifications
• Particularly useful for high-throughput

oligonucleotide synthesis
• Coupling efficiency of ≥99.0% is

routinely obtained
• Convenient cleavage and deprotection
• Avoids the use of unusual and potentially

harmful reagents in the deprotection process
e.g., heavy metals, sulfides
47
Products Universal CPG
Our universal CPG can be employed instead of Cleavage and deprotection

conventional nucleoside-loaded CPG — whether
The cleavage of oligonucleotides from the
loaded with adenosine, cytidine, guanosine or
universal CPG-support and the deprotection
thymidine nucleosides, in the synthesis of any
reaction can be performed with a variety of
oligonucleotide sequence, irrespective of the 3'-
reagents. We have successfully applied the
end nucleoside. The universal CPG contains an
following reagents and conditions to completely
inosine-ribonucleotide adapter that is removed
cleave the inosine-ribonucleotide adapter from the
from the synthesized oligonucleotide during the
oligonucleotide while simultaneously deprotecting
cleavage and deprotection reaction.
the oligonucleotide:
SAFC’s universal CPG can be used with the same
• concentrated ammonia/0.5 M lithium chloride
standard conditions and reagents that are employed
solution 5/1, v/v, at 75°C for 6 hours
for the synthesis of oligonucleotides conducted with
nucleoside-loaded CPG. The preparation differences • concentrated ammonia/0.5 M sodium chloride
of oligonucleotides using our universal CPG, are: solution 5/1, v/v, at 75°C for 6 hours, or
• the 3'-base of the oligonucleotide to be • 40% aqueous methylamine at 75°C for 6 hours
synthesized is not attached to the support: this
base must be added in the first synthesis cycle
Method
on the universal support
1. Attach the universal CPG to the synthesizer in
• there is a simple modification to the cleavage
the same way as a nucleoside-loaded CPG.
and deprotection conditions, as detailed below
• the first deblocking step — which is conducted
wish to synthesize. Note that the 3'-nucleoside
in the usual manner — will not result in the
of the oligonucleotide sequence must be
release of the colored dimethoxytrityl cation
included in the bases to be attached to the
from the support. This is because the inosine-
support during the synthesis. This can be
ribonucleotide adapter contains a different acid-
achieved with a dummy nucleoside unit for
labile protective group (methoxyethylidene group)
the 3'-end of the sequence, e.g., add a
The universal CPG can be substituted for all thymidine unit to the 3'-end of the sequence.
conventional DNA supports, as well as supports
3. Proceed as you would with a standard oligo-
loaded with 2'O-Methyl nucleosides and supports
nucleotide synthesis. Depending on your
with other modified nucleosides. It can also be
used with biotin and fluorescein phosphoramidites
either choose DMT-On or DMT-Off procedures.
to produce 3'-modified oligonucleotides, and for
the synthesis of thioated DNA oligonucleotides. 4. The first deblocking step proceeds without
release of the orange color of the
Note: The use of universal CPG for the synthesis of
dimethoxytrityl cation. This step is
RNA oligonucleotides or for any synthesis that
nevertheless necessary to deprotect the
involves base-labile nucleosides or other base-
inosine-ribonucleoside adapter of the
labile modifications, e.g., rhodamine dyes or
universal CPG.
Cy™3/Cy5, is not recommended.
5. Cleave and deprotect the oligonucleotide on
the support using one of the conditions listed
under “Cleavage and deprotection” above.
6. Transfer the supernatant solution of the

oligonucleotide from the support into a
separate vial. The yield of the oligonucleotide
can be further improved by rinsing the
support with water and combining the
7. The oligonucleotide is now ready for further

processing such as desalting or purification
48
Liquid Reagents
Liquid Reagents Features Benefits

In solid-phase synthesis of oligonucleotides, • Products designed • Constant high
for oligonucleotide synthesis
liquid reagents are used in each step of the
synthesis performance
synthesis cycle. Overall synthesis performance,
• Liquid reagents • Key oligonucleotide
and therefore total product yield and purity of
offered in addition synthesis reagents
the crude oligonucleotide, is highly dependent to amidites and available in one shop
on the chemical purity of the monomers and the supports
supporting liquid reagents. • Constant high • Matching with high
quality quality amidites and
SAFC Supply Solutions has more than 25 years of support products
manufacturing experience in DNA and RNA • Broad range of • Offering high
synthesis reagents. Our liquid reagents meet the packaging flexibility
most stringent quality specifications, making them
• Customized • Special requirements
ideal for use in automated nucleic acid synthesis.
formulations and will be fulfilled
Lot-to-lot consistency is guaranteed for every
specifications
product manufactured in our ISO 9001 certified
• Technical expertise •Supporting
site. Each lot is individually quality-controlled to
customized solutions
ensure optimum synthesis performance.
• New product • Synthesis
development: optimization and cost
Activator 42 reduction
49
Products Liquid Reagents
B* = protected base
Finalized Synthesis:
L = last cycle Cleavage and Deprotection
N = actual new cycle after x cycles:
BL B
x = number of cycles BN
O O
=
* = B, is equivalent to
=
O P O O H
BL in the cycle HO O P O
O O
x-1
Start of Synthesis*:
CPG Column loaded with
BLac Bac
O O
first nucleoside:
=
O
O O P O B1ac
OR
x-1 O
Capping 2: DMT O
Cap A and B Start
solutions Cycle
Detritylation:
Deblock solution
BLac Bac
BNac O
O Bac
=
O BLac
=
O P O O P O O
DMT O
=
OR OR O
x-1 HO O P O
Oxidation: OR
x-1
Oxidizer solution
Capping 1:
BNac
BLac Bac Cap A and B N(iPr)2
O O solution DMT O O P
=
O P O O OR
O +
OR
x-1 Coupling Activator solution
BLac Bac
BNac O
O
=
= O P O O
DMT O O P O
OR OR
x-1
The Oligonucleotide Synthesis Cycle

For TAC-protected G-amidites (dG(tac) phoshoramidite, rG(tac) phosphoramidite) Fast Deprotection
Cap A must be employed to prevent transacylation side reactions on the guanine base.
Chemical Composition and Purpose

of Proligo Reagents’ Liquid Reagents
during the Synthesis Cycle
Deblock solution, containing trichloracetic acid in each synthesis cycle). These unreacted 5'hydroxyl
(TCA) or dichloroacetic acid (DCA) in dichloro- groups are capped with an acetyl group and thus
methane, removes the dimethoxytrityl (DMT) rendered unreactive for subsequent synthesis steps.
protecting group from the 5'hydroxyl moiety of For synthesis with Proligo Reagents’ TAC-protected
nucleotides already incorporated into the growing phosphoramidites, Fast Deprotection CAP A solution
nucleic acid, prior to the addition of the next must be employed instead of Cap A solution.
phosphoramidite. Removal of the DMT allows the
Fast Deprotection Cap A solution must be used
unprotected 5'hydroxyl moiety to react with a new
for synthesis with Proligo Reagents’ TAC-protected
phosphoramidite in a subsequent extension reaction.
phosphoramidites. Fast Deprotection Cap A
Wash solution, containing anhydrous acetonitrile solution, containing tert-butylphenoxyacetyl acetic
(water content ≤30 ppm), is used as the overall wash anhydride (tac2O) in tetrahydrofuran, is used in
solvent following each step in the synthesis cycle. place of Cap A solution to ensure that the
displacement of tert-butylphenoxyacetyl (TAC) on
Activator solution, containing powerful activators
guanine bases of the TAC-protected RNA
like 4,5-dicyanoimidazole (DCI) or 5-(3,5-
phosphoramidites does not occur.
bis(trifluoromethyl)phenyl)-1H-tetrazole (Activator 42)
in acetonitrile, are mixed with solutions of phospho- Cap B solution, containing tetrahydrofuran (THF),
ramidites during the extension step. The activator pyridine and N-methylimidazole (NMI), is mixed in situ
reacts with the amidite group to form a highly with Cap A solution during the capping (acetylation)
reactive intermediate. The intermediate then forms an reaction. Pyridine is applied as a mild base while NMI
internucleotide bond with the detritylated 5'hydroxyl provides a powerful acylation catalyst.
group of the growing oligonucleotide chain.
Oxidizer solution, containing tetrahydrofuran (THF),
Cap A solution, containing acetic anhydride and pyridine, iodine and water, is applied to oxidize the
tetrahydrofuran (THF), is used after the phospho- chemically unstable trivalent phosphorous triester
ramidite reaction/coupling step. This solution aborts linkage formed in the coupling reaction to a stable
chains bearing unreacted 5'hydroxyl groups due to pentavalent phosphate triester. Iodine functions
failure of reaction with activated phosphoramidite as a mild oxidant and water functions as an
(typically, 1 to 2% of growing oligonucleotide chains oxygen donor.
50
Custom products Bulk
Inquire for customized liquid reagents with Packaging in drums or m3-containers is available
specialty formulations or alternative packaging. upon request.
Liquid Reagents Liquid Reagents (continued)

Catalog No. Description Unit Compatible with ABI Instruments
L010010-06 Amidite Diluent (Acetonitrile) 6 x 100 ml L260045-06 Oxidizer 0.02 M for ABI Instruments 6 x 450 ml
L010250-04 Acetonitrile 4 x 2.5 L L320045-01 TCA Deblock for ABI Instruments 1 x 450 ml
L010400-04 Acetonitrile 4x4L L3300182-06 Activator 42 0.1 M 6 x 180 ml
L011800-01 Acetonitrile 1 x 18 L L8300452-06 Activator 42 0.1 M 6 x 450 ml
L014500-C01-01 Acetonitrile 1 x 45 L L8300462-06 Activator 42 0.25 M 6 x 450 ml
L0120000-C01-01 Acetonitrile 1 x 200 L L8300451-06 ETT Activator 0.25 M 6 x 450 ml
L0114000-01 Acetonitrile 1 x 1400 L L340018-06 Cap A for ABI Instruments 6 x 180 ml
L020250-04 TCA Deblock 4 x 2.5 L L340045-06 Cap A for ABI Instruments 6 x 450 ml
L0202502-04 TFA Deblock Toluene 4 x 2.5 L L350018-06 Cap B for ABI Instruments 6 x 180 ml
L020251-04 DCA Deblock 4 x 2.5 L L350045-06 Cap B for ABI Instruments 6 x 450 ml
L020400-04 TCA Deblock 4x4L L360020-06 Oxidizer 0.1 M for ABI Instruments 6 x 200 ml
L022500-01 TCA Deblock 1 x 25 L L360045-06 Oxidizer 0.1 M for ABI Instruments 6 x 450 ml
L0302502-04 Activator 42 0.1 M 4 x 2.5 L L860021-06 Oxidizer 0.02 M for ABI Instruments 6 x 200 ml
L0302512-04 Activator 42 0.25 M 4 x 2.5 L L370018-06 Fast Deprotection Cap A for ABI Instruments 6 x 180 ml
L0302501-04 ETT Activator 0.25 M 4 x 2.5 L L370045-06 Fast Deprotection Cap A 6 x 450 ml
L040250-01 Cap A 1 x 2.5 L L380018-06 DCI Activator 0.25 M for ABI Instruments 6 x 180 ml
L040250-04 Cap A 4 x 2.5 L L880045-06 DCI Activator 0.25 M 6 x 450 ml
L040251-01 Cap A for ABI Instruments 1 x 2.5 L Compatible with Expedite and Polygen Instruments
L040400-01 Cap A 1x4L L810045-06 Acetonitrile for 8900 Instruments 6 x 450 ml
L050250-01 Cap B 1 x 2.5 L L820090-06 TCA Deblock for 8900 Instruments 6 x 900 ml
L050250-04 Cap B 4 x 2.5 L L8300202-06 Activator 42 0.1 M 6 x 200 ml
L050251-01 Cap B for ABI Instruments 1 x 2.5 L L8300212-06 Activator 42 0.25 M 6 x 200 ml
L050400-01 Cap B 1x4L L830045-06 Activator 42 0.1 M 6 x 450 ml
L060250-04 Oxidizer 0.02 M 4 x 2.5 L L8300462-06 Activator 42 0.25 M 6 x 450 ml
L060251-04 Oxidizer 0.1 M for ABI Instruments 4 x 2.5 L L840020-06 Cap A for 8900 Instruments 6 x 200 ml
L060252-04 Oxidizer 0.02 M for ABI 3900 Instruments 4 x 2.5 L L840045-06 Cap A for 8900 Instruments 6 x 450 ml
L060400-04 Oxidizer 0.02 M 4x4L L850020-06 Cap B for 8900 Instruments 6 x 200 ml
L070250-01 Fast Deprotection Cap A 1 x 2.5 L L850045-06 Cap B for 8900 Instruments 6 x 450 ml
L070400-01 Fast Deprotection Cap A 1x4L L860020-06 Oxidizer 0.02 M for 8900 Instruments 6 x 200 ml
L080250-04 DCI Activator 0.25 M 4 x 2.5 L L860045-06 Oxidizer 0.02 M for 8900 Instruments 6 x 450 ml
L080251-04 DCI Activator 0.5 M 4 x 2.5 L L870020-06 Fast Deprotection Cap A for 8900 Instruments 6 x 200 ml
L080400-04 DCI Activator 0.25 M 4x4L L370045-06 Fast Deprotection Cap A 6 x 450 ml
L082500-01 DCI Activator 0.25 M 1 x 25 L L880020-06 DCI Activator 0.25 M for 8900 Instruments 6 x 200 ml
ACN Based Liquid Reagents L880045-06 DCI Activator 0.25 M 6 x 450 ml
LB40250-01 Cap A ACN 1 x 2.5 L Compatible with Äkta and Oligo Pilot Instruments
LB50250-01 Cap B ACN 1 x 2.5 L L520251-04 DCA Deblock (Toluene) 4 x 2.5 L
LR40250-01 Cap 1 in ACN 1 x 2.5 L L540250-01 Cap A for Äkta and Oligo Pilot 1 x 2.5 L
LR50250-01 Fast Deprotection Cap 2 in ACN 1 x 2.5 L L550250-01 Cap B1 for Äkta and Oligo Pilot 1 x 1.25 L
LR60250-04 Oxidizer in ACN 4 x 2.5 L L550251-01 Cap B2 for Äkta and Oligo Pilot 1 x 1.25 L
L560250-04 Oxidizer 0.05 M for Äkta and Oligo Pilot 4 x 2.5 L
51
Products Activator 42
Activator 42®
Activator 42 introduces unprecedented Solid phase oligonucleotide synthesis with
activation power to phosphoramidite coupling phosphoramidites consists of a sequence of three
consecutive reaction steps which are repeated in a
reactions. This novel activator provides unique
cyclical manner, deblocking, coupling and oxidation.
opportunities to speed up oligonucleotide
Whereas deblocking and oxidation reactions
synthesis and to improve on product yield.
proceed with nearly quantitative yields in state-of-
the-art oligonucleotide synthesis, the coupling
reactions, although high yielding, determine the
overall efficiency of the process. Coupling yields are
driven by a variety of factors, including amidite and
solid support quality, water content of the coupling
medium and the choice of activator molecule
employed. An ideal activator should promote the
coupling of standard DNA amidites as well as the
coupling of more sterically demanding amidites
(e.g. 2'O-TBDMS-RNA amidites) in a highly efficient
manner. The activator should have excellent
solubility in the coupling medium (i.e., acetonitrile)
in order to avoid undesired precipitation or
crystallization, should not be hygroscopic, should
be safe to handle and should not lead to side
reactions in oligonucleotide synthesis. These
desired properties can be attributed to a new
powerful activator molecule which gives superior
performance compared to the other commercial
activators such as 5-ethylthio-1H-tetrazole (ETT),
5-benzylthio-1H-tetrazole (BTT) and
Key features of Activator 42 4,5-dicyanoimidazole (DCI).
• The highest activation efficiency in the industry Activation efficiency for 2'O-TBDMS-RNA amidites
compared to other activators Activator 42 > ETT = BTT
• Promotes ultrafast DNA couplings Activation efficiency for standard DNA amidites
(coupling time less than 15 seconds) Activator 42 > DCI
• Promotes rapid RNA couplings Activator 42

(coupling time 6 minutes) Catalog No. Description Unit
• Excellent solubility in acetonitrile L0302502-04 Activator 42 0.1 M 4 x 2.5 L
(greater than 0.9 M) L3300182-06 Activator 42 0.1 M 6 x 180 ml
L8300452-06 Activator 42 0.1 M 6 x 450 ml

• Not hygroscopic
L8300202-06 Activator 42 0.1 M 6 x 200 ml
• Safe to handle (no explosive properties)
L0302512-04 Activator 42 0.25 M 4 x 2.5 L
• Very high overall yield in DNA and L8300462-06 Activator 42 0.25 M 6 x 450 ml
RNA synthesis
L8300212-06 Activator 42 0.25 M 6 x 200 ml
Other quantities and packaging are available upon request.
52
Product List
DNA Pharmadites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 54
RNA Pharmadites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 54
Standard DNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 54
Fast Deprotection Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 55
RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 55
Fast Deprotection RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 55
2’0-Methyl RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56
DMT-2'Fluoro Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56
Labels and Modifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56
Non-Standard Nucleosides . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56
Phosphate-ON Phosphoramidite . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56
NPPOC Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56
DNA CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 57
Fast Deprotection CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 57
Fast Deprotection RNA CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 57
2’0-Methyl RNA CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 57
DNA Columns . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 58
Fast Deprotection RNA Columns . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 58
2’0-Methyl RNA Columns . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 58
Amino-ON CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 59
Universal CPG . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 59
Liquid Reagents . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 59
Activator 42 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 60
53
Products Product List
DNA Pharmadites Standard DNA Phosphoramidites (cont.)

Catalog No. Description Compatible with MerMade Instruments (8oz 28/400 bottle)
A111P00-C DMT-dA(bz) Pharmadite A111085-06 DMT-dA(bz) Amidite 6x5g
C111P00-C DMT-dC(bz) Pharmadite C111085-06 DMT-dC(bz) Amidite 6x5g
G111P00-C DMT-dG(ib) Pharmadite G111085-06 DMT-dG(ib) Amidite 6x5g
T111P00-C DMT-dT Pharmadite T111085-06 DMT-dT Amidite 6x5g
RNA Pharmadites A111028-06 DMT-dA(bz) Amidite 6 x 10 g
A211P00-C DMT-2'O-TBDMS-rA(bz) Pharmadite C111028-06 DMT-dC(bz) Amidite 6 x 10 g
C213P00-C DMT-2'O-TBDMS-rC(ac) Pharmadite G111028-06 DMT-dG(ib) Amidite 6 x 10 g
G211P00-C DMT-2'O-TBDMS-rG(ib) Pharmadite T111028-06 DMT-dT Amidite 6 x 10 g
U211P00-C DMT-2'O-TBDMS-rU Pharmadite Compatible with Äkta and Oligo Pilot Instruments (100 ml septum bottle)
Standard DNA Phosphoramidites G111005-01 DMT-dG(ib) Amidite 1x5g
Compatible with Expedite and Polygen Instruments T111005-01 DMT-dT Amidite 1x5g
Catalog No. Description Unit A111005-06 DMT-dA(bz) Amidite 6x5g
A111081-12 DMT-dA(bz) Amidite 12 x 1 g C111005-06 DMT-dC(bz) Amidite 6x5g
C111081-12 DMT-dC(bz) Amidite 12 x 1 g G111005-06 DMT-dG(ib) Amidite 6x5g
G111081-12 DMT-dG(ib) Amidite 12 x 1 g T111005-06 DMT-dT Amidite 6x5g
T111081-12 DMT-dT Amidite 12 x 1 g A111010-01 DMT-dA(bz) Amidite 1 x 10 g
T111082-12 DMT-dT Amidite 12 x 2 g Bulk Quantities (16 oz 28/400 bottle)
Compatible with ABI Instruments A111021-06 DMT-dA(bz) Amidite 6 x 10 g
T111031-12 DMT-dT Amidite 12 x 1 g A111020-06 DMT-dA(bz) Amidite 6 x 20 g
54
Fast Deprotection Phosphoramidites RNA Phosphoramidites
Compatible with Expedite and Polygen Instruments Compatible with Expedite and Polygen Instruments
Catalog No. Description Unit Catalog No. Description Unit

C113081-12 DMT-dC(ac) Amidite 12 x 1 g A211081-01 DMT-2'O-TBDMS-rA(bz) Amidite 1 x 0.5 g
C113082-12 DMT-dC(ac) Amidite 12 x 2 g C213081-01 DMT-2'O-TBDMS-rC(ac) Amidite 1 x 0.5 g
A112081-12 DMT-dA(tac) Amidite 12 x 1 g G211081-01 DMT-2'O-TBDMS-rG(ib) Amidite 1 x 0.5 g
C112081-12 DMT-dC(tac) Amidite 12 x 1 g U211081-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g
G112081-12 DMT-dG(tac) Amidite 12 x 1 g Compatible with ABI Instruments
A112082-12 DMT-dA(tac) Amidite 12 x 2 g A211031-01 DMT-2'O-TBDMS-rA(bz) Amidite 1 x 0.5 g
C112082-12 DMT-dC(tac) Amidite 12 x 2 g C213031-01 DMT-2'O-TBDMS-rC(ac) Amidite 1 x 0.5 g
G112082-12 DMT-dG(tac) Amidite 12 x 2 g G211031-01 DMT-2'O-TBDMS-rG(ib) Amidite 1 x 0.5 g
G115081-12 DMT-dG(dmf) Amidite 12 x 1 g U211031-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g
G115082-12 DMT-dG(dmf) Amidite 12 x 2 g A211061-01 DMT-2'O-TBDMS-rA(bz) Amidite 1x1g
Compatible with ABI Instruments C213061-01 DMT-2'O-TBDMS-rC(ac) Amidite 1x1g
A112031-12 DMT-dA(tac) Amidite 12 x 4 g G211061-01 DMT-2'O-TBDMS-rG(ib) Amidite 1x1g
C113031-12 DMT-dC(ac) Amidite 12 x 1 g U211061-01 DMT-2'O-TBDMS-rU Amidite 1x1g
G112031-12 DMT-dG(tac) Amidite 12 x 1 g Fast Deprotection RNA Phosphoramidites

A112032-12 DMT-dA(tac) Amidite 12 x 2 g Compatible with Expedite and Polygen Instruments
C112032-12 DMT-dC(tac) Amidite 12 x 2 g Catalog No. Description Unit
G112032-12 DMT-dG(tac) Amidite 12 x 2 g A212081-01 DMT-2'O-TBDMS-rA(tac) Amidite 1 x 0.5 g
A112064-12 DMT-dA(tac) Amidite 12 x 4 g C212081-01 DMT-2'O-TBDMS-rC (tac) Amidite 1 x 0.5 g
C112064-12 DMT-dC(tac) Amidite 12 x 4 g G212081-01 DMT-2'O-TBDMS-rG(tac) Amidite 1 x 0.5 g
G115031-12 DMT-dG(dmf) Amidite 12 x 1 g U211081-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g
G115032-12 DMT-dG(dmf) Amidite 12 x 2 g Compatible with ABI Instruments
G115064-12 DMT-dG(dmf) Amidite 12 x 4 g A212031-01 DMT-2'O-TBDMS-rA(tac) Amidite 1 x 0.5 g
Compatible with MerMade Instruments (8oz 28/400 bottle) C212031-01 DMT-2'O-TBDMS-rC (tac) Amidite 1 x 0.5 g
C113085-06 DMT-dC(ac) Amidite 6x5g G212031-01 DMT-2'O-TBDMS-rG(tac) Amidite 1 x 0.5 g
C112028-01 DMT-dC(tac) Amidite 1 x 10 g U211031-01 DMT-2'O-TBDMS-rU Amidite 1 x 0.5 g
C112085-06 DMT-dC(tac) Amidite 6x5g A212061-01 DMT-2'O-TBDMS-rA(tac) Amidite 1x1g
G115028-06 DMT-dG(dmf) Amidite 6 x 10 g C212061-01 DMT-2'O-TBDMS-rC (tac) Amidite 1x1g
G115085-06 DMT-dG(dmf) Amidite 6x5g G212061-01 DMT-2'O-TBDMS-rG(tac) Amidite 1x1g
Compatible with Äkta and Oligo Pilot Instruments (100 ml septum bottle) U211061-01 DMT-2'O-TBDMS-rU Amidite 1x1g
A112010-01 DMT-dA(tac) Amidite 1 x 10 g Compatible with MerMade Instruments
C112010-01 DMT-dC(tac) Amidite 1 x 10 g A212028-06 DMT-2'O-TBDMS-rA(tac) Amidite 6 x 10 g
G112010-01 DMT-dG(tac) Amidite 1 x 10 g C212028-06 DMT-2'O-TBDMS-rC (tac) Amidite 6 x 10 g
G115005-01 DMT-dG(dmf) Amidite 1x5g G212028-06 DMT-2'O-TBDMS-rG(tac) Amidite 6 x 10 g
Bulk Quantities (16 oz 28/400 bottle) U211028-06 DMT-2'O-TBDMS-rU Amidite 6 x 10 g
C113020-06 DMT-dC(ac) Amidite 6 x 20 g Bulk Quantities
C112021-06 DMT-dC(tac) Amidite 6 x 10 g A212010-01 DMT-2'O-TBDMS-rA(tac) Amidite 1 x 10 g
C112020-06 DMT-dC(tac) Amidite 6 x 20 g C212010-01 DMT-2'O-TBDMS-rC (tac) Amidite 1 x 10 g
G115021-06 DMT-dG(dmf) Amidite 6 x 10 g G212010-01 DMT-2'O-TBDMS-rG(tac) Amidite 1 x 10 g
55
2’0-Methyl RNA Phosphoramidites Labels and Modifications

Catalog No. Description Unit Compatible with Expedite and Polygen Instruments
Compatible with Expedite Instruments Catalog No. Description Unit

A211181-01 DMT-2'O-Me-rA(bz) Amidite 1 x 0.5 g M010982-01 ssH-Linker 1 x 0.25 g
A212181-01 DMT-2'O-Me-rA(tac) Amidite 1 x 0.5 g M010882-01 TFA Hexylaminolinker 1 x 0.25 g
C212181-01 DMT-2'O-Me-rC(tac) Amidite 1 x 0.5 g M010181-01 Fluorescein Amidite 1 x 0.1 g
C213181-01 DMT-2'O-Me-rC(ac) Amidite 1 x 0.5 g M010282-01 MMT-Hexylamine-Linker Amidite 1 x 0.25 g
G211181-01 DMT-2'O-Me-rG(ib) Amidite 1 x 0.5 g M010381-01 Biotin Amidite 1 x 0.1 g
G212181-01 DMT-2'O-Me-rG(tac) Amidite 1 x 0.5 g M010382-01 Biotin Amidite 1 x 0.25 g
U211181-01 DMT-2'O-Me-rU Amidite 1 x 0.5 g M010682-01 TFA Pentylaminolinker Amidite 1 x 0.25 g
Compatible with ABI Instruments Compatible with ABI Instruments

A211131-01 DMT-2'O-Me-rA(bz) Amidite 1 x 0.5 g M010932-01 ssH-Linker 1 x 0.25 g
A212131-01 DMT-2'O-Me-rA(tac) Amidite 1 x 0.5 g M010832-01 TFA Hexylaminolinker Amidite 1 x 0.25 g
C212131-01 DMT-2'O-Me-rC(tac) Amidite 1 x 0.5 g M010131-01 Fluorescein Amidite 1 x 0.1 g
C213131-01 DMT-2'O-Me-rC(ac) Amidite 1 x 0.5 g M010232-01 MMT-Hexylamine-Linker Amidite 1 x 0.25 g
G211131-01 DMT-2'O-Me-rG(ib) Amidite 1 x 0.5 g M010331-01 Biotin Amidite 1 x 0.1 g
G212131-01 DMT-2'O-Me-rG(tac) Amidite 1 x 0.5 g M010332-01 Biotin Amidite 1 x 0.25 g
U211131-01 DMT-2'O-Me-rU Amidite 1 x 0.5 g M010632-01 TFA Pentylaminolinker Amidite 1 x 0.25 g
A211161-01 DMT-2'O-Me-rA(bz) Amidite 1x1g
C212161-01 DMT-2'O-Me-rC(tac) Amidite 1x1g
C213161-01 DMT-2'O-Me-rC(ac) Amidite 1x1g Non-Standard Nucleosides

G211161-01 DMT-2'O-Me-rG(ib) Amidite 1x1g Compatible with Expedite and Polygen Instruments
U211161-01 DMT-2'O-Me-rU Amidite 1x1g Catalog No. Description Unit
Bulk Quantities M113381-01 5-Methyl-dC(ac) Amidite 1 x 0.25 g
A211110-01 DMT-2'O-Me-rA(bz) Amidite 1 x 10 g M111181-01 DMT-dInosine Amidite 1 x 0.25 g
A212110-01 DMT-2'O-Me-rA(tac) Amidite 1 x 10 g M110281-01 DMT-dUridine Amidite 1 x 0.25 g
C212110-01 DMT-2'O-Me-rC(tac) Amidite 1 x 10 g Compatible with ABI Instruments

G211110-01 DMT-2'O-Me-rG(ib) Amidite 1 x 10 g M113331-01 5-Methyl-dC(ac) Amidite 1 x 0.25 g
G212110-01 DMT-2'O-Me-rG(tac) Amidite 1 x 10 g M111131-01 DMT-dInosine Amidite 1 x 0.25 g
U211110-01 DMT-2'O-Me-rU Amidite 1 x 10 g M110231-01 DMT-dUridine Amidite 1 x 0.25 g
DMT-2'Fluoro Phosphoramidites Phosphate-ON Phosphoramidite

Catalog No. Description Unit Compatible with Expedite and Polygen Instruments
C213281-01 DMT-2'Fluoro-dC(ac) Amidite, 89 1 x 0.25 g Catalog No. Description Unit
C213231-01 DMT-2'Fluoro-dC(ac) Amidite, ABI 1 x 0.25 g M010782-01 Phosphate-ON Amidite 1 x 0.25 g
C213233-01 DMT-2'Fluoro-dC(ac) Amidite, ABI 1x1g Compatible with ABI Instruments

U211281-01 DMT-2'Fluoro-dU Amidite, 89 1 x 0.25 g M010732-01 Phosphate-ON Amidite 1 x 0.25 g
U211231-01 DMT-2'Fluoro-dU Amidite, ABI 1 x 0.25 g
U211233-01 DMT-2'Fluoro-dU Amidite, ABI 1x1g
NPPOC Phosphoramidites
A112N01-01 NPPOC-dA(tac) Amidite 1x1g
C114N01-01 NPPOC-dC(ib) Amidite 1x1g
G114N01-01 NPPOC-dG(ipac) Amidite 1x1g
T111N01-01 NPPOC-dT Amidite 1x1g
56
DNA CPG Fast Deprotection RNA CPG
A301001-01 CPG 500Å dA(bz), 30-40 mol/g 1x1g A602001-01 CPG 500Å rA(tac), 25-35 mol/g 1x1g
C301001-01 CPG 500Å dC(bz), 30-40 mol/g 1x1g C602001-01 CPG 500Å rC(tac), 25-35 mol/g 1x1g
G301001-01 CPG 500Å dG(ib), 30-40 mol/g 1x1g G602001-01 CPG 500Å rG(tac), 25-35 mol/g 1x1g
T301001-01 CPG 500Å dT 30-40 mol/g 1x1g U601001-01 CPG 500Å rU, 25-35 mol/g 1x1g
G301010-01 CPG 500Å dG(ib), 30-40 mol/g 1 x 10 g 2’0-Methyl RNA CPG

T301010-01 CPG 500Å dT 30-40 mol/g 1 x 10 g Catalog No. Description Unit
A401001-01 CPG 1000Å dA(bz), 25-35 mol/g 1x1g A601101-01 CPG 500Å 2'O-Methyl-rA(bz), 30-40 mol/g 1x1g
C401001-01 CPG 1000Å dC(bz), 25-35 mol/g 1x1g C602101-01 CPG 500Å 2'O-Methyl-rC(tac), 30-40 mol/g 1x1g
G401001-01 CPG 1000Å dG(ib), 25-35 mol/g 1x1g G601101-01 CPG 500Å 2'O-Methyl-rG(ib), 30-40 mol/g 1x1g
T401001-01 CPG 1000Å dT 25-35 mol/g 1x1g U601101-01 CPG 500Å 2'O-Methyl-rU, 30-40 mol/g 1x1g
T401010-01 CPG 1000Å dT 25-35 mol/g 1 x 10 g
Fast Deprotection CPG

G305001-01 CPG 500Å dG(dmf), 30-40 mol/g 1x1g
G305010-01 CPG 500Å dG(dmf), 30-40 mol/g 1 x 10 g
57
DNA Columns DNA Columns (cont.)

Compatible with Expedite Instruments Compatible with ABI 3900 Instruments
A311010-01 Column CPG 500Å dA(bz), 50 nmol 1 x 100 A911010-01 Column Polystyrene 40 dA(bz), 40 nmol, 1 x 100
ABI 3900
C311010-01 Column CPG 500Å dC(bz), 50 nmol 1 x 100
C911010-01 Column Polystyrene 40 dC(bz), 40 nmol, 1 x 100
G311010-01 Column CPG 500Å dG(ib), 50 nmol 1 x 100 ABI 3900
T311010-01 Column CPG 500Å dT, 50 nmol 1 x 100 G915010-01 Column Polystyrene 40 dG(dmf), 40 nmol, 1 x 100
ABI 3900
T911010-01 Column Polystyrene 40 dT, 40 nmol, ABI 3900 1 x 100
A921010-01 Column Polystyrene 40 dA(bz), 0.2 µmol, 1 x 100
G321010-01 Column CPG 500Å dG(ib), 0.2 mol 1 x 100 ABI 3900
C921010-01 Column Polystyrene 40 dC(bz), 0.2 µmol, 1 x 100
ABI 3900
A331010-01 Column CPG 500Å dA(bz), 1 mol 1 x 100 G925010-01 Column Polystyrene 40 dG(dmf), 0.2 µmol, 1 x 100
C331010-01 Column CPG 500Å dC(bz), 1 mol 1 x 100 ABI 3900
T921010-01 Column Polystyrene 40 dT, 0.2 µmol, ABI 3900 1 x 100
G331010-01 Column CPG 500Å dG(ib), 1 mol 1 x 100
T331010-01 Column CPG 500Å dT, 1 mol 1 x 100
C421010-01 Column CPG 1000Å dC(bz), 0.2 mol 1 x 100 Fast Deprotection RNA Columns
G421010-01 Column CPG 1000Å dG(ib), 0.2 mol 1 x 100 Compatible with Expedite Instruments
T421010-01 Column CPG 1000Å dT, 0.2 mol 1 x 100 Catalog No. Description Unit
A431010-01 Column CPG 1000Å dA(bz), 1 mol 1 x 100 A632004-01 Column CPG 500Å rA(tac), 1 mol 1x4
C431010-01 Column CPG 1000Å dC(bz), 1 mol 1 x 100 C632004-01 Column CPG 500Å rC(tac), 1 mol 1x4
G431010-01 Column CPG 1000Å dG(ib), 1 mol 1 x 100 G632004-01 Column CPG 500Å rG(tac), 1 mol 1x4
T431010-01 Column CPG 1000Å dT, 1 mol 1 x 100 U631004-01 Column CPG 500Å rU, 1 mol 1x4
Compatible with Expedite & ABI Instruments Compatible with ABI Instruments
A341010-01 Column CPG 500Å dA(bz), 50 nmol, ABI/89 1 x 100 A662004-01 Column CPG 500Å rA(tac), 1 mol 1x4
C341010-01 Column CPG 500Å dC(bz), 50 nmol, ABI/89 1 x 100 C662004-01 Column CPG 500Å rC(tac), 1 mol 1x4
G341010-01 Column CPG 500Å dG(ib), 50 nmol, ABI/89 1 x 100 G662004-01 Column CPG 500Å rG(tac), 1 mol 1x4
T341010-01 Column CPG 500Å dT, 50 nmol, ABI/89 1 x 100 U661004-01 Column CPG 500Å rU, 1 mol 1x4
C351010-01 Column CPG 500Å dC(bz), 0.2 mol, ABI/89 1 x 100
G351010-01 Column CPG 500Å dG(ib), 0.2 mol, ABI/89 1 x 100 2’0-Methyl RNA Columns
T351010-01 Column CPG 500Å dT, 0.2 mol, ABI/89 1 x 100 Compatible with Expedite Instruments
A361010-01 Column CPG 500Å dA(bz), 1 mol, ABI/89 1 x 100 Catalog No. Description Unit
C361010-01 Column CPG 500Å dC(bz), 1 mol, ABI/89 1 x 100 A631104-01 Column CPG 500Å 2'O-Me-rA(bz), 1 mol 1x4
G361010-01 Column CPG 500Å dG(ib), 1 mol, ABI/89 1 x 100 C632104-01 Column CPG 500Å 2'O-Me-rC(tac), 1 mol 1x4
T361010-01 Column CPG 500Å dT, 1 mol, ABI/89 1 x 100 G631104-01 Column CPG 500Å 2'O-Me-rG(ib), 1 mol 1x4
A451010-01 Column CPG 1000Å dA(bz), 0.2 mol, ABI/89 1 x 100 U631104-01 Column CPG 500Å 2'O-Me-rU, 1 mol 1x4
C451010-01 Column CPG 1000Å dC(bz), 0.2 mol, ABI/89 1 x 100 Compatible with ABI Instruments
G451010-01 Column CPG 1000Å dG(ib), 0.2 mol, ABI/89 1 x 100 A661104-01 Column CPG 500Å 2'O-Me-rA(bz), 1 mol 1x4
T451010-01 Column CPG 1000Å dT, 0.2 mol, ABI/89 1 x 100 C662104-01 Column CPG 500Å 2'O-Me-rC(tac), 1 mol 1x4
A461010-01 Column CPG 1000Å dA(bz), 1 mol, ABI/89 1 x 100 G661104-01 Column CPG 500Å 2'O-Me-rG(ib), 1 mol 1x4
C461010-01 Column CPG 1000Å dC(bz), 1 mol, ABI/89 1 x 100 U661104-01 Column CPG 500Å 2'O-Me-rU, 1 mol 1x4
T461010-01 Column CPG 1000Å dT 0.2 mol, ABI/89 1 x 100
58
Amino-ON CPG Liquid Reagents
Bulk CPG Catalog No. Description Unit
Catalog No. Description Unit L010010-06 Amidite Diluent (Acetonitrile) 6 x 100 ml
M020101-01 Amino-ON CPG 500Å, 30-40 mol/g 1 x 0.25 g L010250-04 Acetonitrile 4 x 2.5 L
M020111-01 Amino-ON CPG 500Å, 30-40 mol/g 1x1g L010400-04 Acetonitrile 4x4L
L011800-01 Acetonitrile 1 x 18 L
L014500-C01-01 Acetonitrile 1 x 45 L
L0120000-C01-01 Acetonitrile 1 x 200 L

Universal CPG
Catalog No. Description Unit L0114000-01 Acetonitrile 1 x 1400 L
M301001-01 Universal CPG 500Å, 30-40 mol/g 1x1g L020250-04 TCA Deblock 4 x 2.5 L
M301010-01 Universal CPG 500Å, 30-40 mol/g 1 x 10 g L0202502-04 TFA Deblock Toluene 4 x 2.5 L
M401001-01 Universal CPG 1000Å, 25-35 mol/g 1x1g L020251-04 DCA Deblock 4 x 2.5 L
M401010-01 Universal CPG 1000Å dT 25-35 mol/g 1 x 10 g L020400-04 TCA Deblock 4x4L
L022500-01 TCA Deblock 1 x 25 L
L0302502-04 Activator 42 0.1 M 4 x 2.5 L
L0302512-04 Activator 42 0.25 M 4 x 2.5 L
L0302501-04 ETT Activator 0.25 M 4 x 2.5 L
L040250-01 Cap A 1 x 2.5 L
L040250-04 Cap A 4 x 2.5 L
L040251-01 Cap A for ABI Instruments 1 x 2.5 L
L040400-01 Cap A 1x4L
L050250-01 Cap B 1 x 2.5 L
L050250-04 Cap B 4 x 2.5 L
L050251-01 Cap B for ABI Instruments 1 x 2.5 L
L050400-01 Cap B 1x4L
L060250-04 Oxidizer 0.02 M 4 x 2.5 L
L060251-04 Oxidizer 0.1 M for ABI Instruments 4 x 2.5 L
L060252-04 Oxidizer 0.02 M for ABI 3900 Instruments 4 x 2.5 L
L060400-04 Oxidizer 0.02 M 4x4L
L070250-01 Fast Deprotection Cap A 1 x 2.5 L
L070400-01 Fast Deprotection Cap A 1x4L
L080250-04 DCI Activator 0.25 M 4 x 2.5 L
L080251-04 DCI Activator 0.5 M 4 x 2.5 L
L080400-04 DCI Activator 0.25 M 4x4L
L082500-01 DCI Activator 0.25 M 1 x 25 L
ACN Based Liquid Reagents

LB40250-01 Cap A ACN 1 x 2.5 L
LB50250-01 Cap B ACN 1 x 2.5 L
LR40250-01 Cap 1 in ACN 1 x 2.5 L
LR50250-01 Fast Deprotection Cap 2 in ACN 1 x 2.5 L
LR60250-04 Oxidizer in ACN 4 x 2.5 L
59
Liquid Reagents (continued) Activator 42

Compatible with ABI Instruments Catalog No. Description Unit
L260045-06 Oxidizer 0.02 M for ABI Instruments 6 x 450 ml L0302502-04 Activator 42 0.1 M 4 x 2.5 L
L320045-01 TCA Deblock for ABI Instruments 1 x 450 ml L3300182-06 Activator 42 0.1 M 6 x 180 ml
L3300182-06 Activator 42 0.1 M 6 x 180 ml L8300452-06 Activator 42 0.1 M 6 x 450 ml
L8300452-06 Activator 42 0.1 M 6 x 450 ml L8300202-06 Activator 42 0.1 M 6 x 200 ml
L8300462-06 Activator 42 0.25 M 6 x 450 ml L0302512-04 Activator 42 0.25 M 4 x 2.5 L
L8300451-06 ETT Activator 0.25 M 6 x 450 ml L8300462-06 Activator 42 0.25 M 6 x 450 ml
L340018-06 Cap A for ABI Instruments 6 x 180 ml L8300212-06 Activator 42 0.25 M 6 x 200 ml
L340045-06 Cap A for ABI Instruments 6 x 450 ml
L350018-06 Cap B for ABI Instruments 6 x 180 ml
L350045-06 Cap B for ABI Instruments 6 x 450 ml
L360020-06 Oxidizer 0.1 M for ABI Instruments 6 x 200 ml
L370018-06 Fast Deprotection Cap A for ABI Instruments 6 x 180 ml
L370045-06 Fast Deprotection Cap A 6 x 450 ml
L380018-06 DCI Activator 0.25 M for ABI Instruments 6 x 180 ml
L880045-06 DCI Activator 0.25 M 6 x 450 ml
L810045-06 Acetonitrile for 8900 Instruments 6 x 450 ml
L820090-06 TCA Deblock for 8900 Instruments 6 x 900 ml
L8300202-06 Activator 42 0.1 M 6 x 200 ml
L8300212-06 Activator 42 0.25 M 6 x 200 ml
L830045-06 Activator 42 0.1 M 6 x 450 ml
L8300462-06 Activator 42 0.25 M 6 x 450 ml
L840020-06 Cap A for 8900 Instruments 6 x 200 ml
L840045-06 Cap A for 8900 Instruments 6 x 450 ml
L850020-06 Cap B for 8900 Instruments 6 x 200 ml
L850045-06 Cap B for 8900 Instruments 6 x 450 ml
L860020-06 Oxidizer 0.02 M for 8900 Instruments 6 x 200 ml
L860045-06 Oxidizer 0.02 M for 8900 Instruments 6 x 450 ml
L870020-06 Fast Deprotection Cap A for 8900 Instruments 6 x 200 ml
L370045-06 Fast Deprotection Cap A 6 x 450 ml
L880020-06 DCI Activator 0.25 M for 8900 Instruments 6 x 200 ml
L880045-06 DCI Activator 0.25 M 6 x 450 ml
Compatible with Äkta and Oligo Pilot Instruments

L520251-04 DCA Deblock (Toluene) 4 x 2.5 L
L540250-01 Cap A for Äkta and Oligo Pilot 1 x 2.5 L
L550250-01 Cap B1 for Äkta and Oligo Pilot 1 x 1.25 L
L550251-01 Cap B2 for Äkta and Oligo Pilot 1 x 1.25 L
L560250-04 Oxidizer 0.05 M for Äkta and Oligo Pilot 4 x 2.5 L
60
To be
inspired
Strength In Our History SAFC Supply Solutions® meet us at the

yearly TIDES
show (US)
Our beginnings are aligned with the
infancy of nucleic acid synthesis
technologies. In 1981, Professor Hubert
Köster founded Biosyntech GmbH,
incorporating proprietary nucleic acid
synthesis technologies in Hamburg,
Germany. Since that time, the entire
Welcome to the
industry has undergone numerous
transformations, and our nucleic acid
chemistry expertise and manufacturing
capabilities have remained at its forefront.
future of genomics
Today, Proligo® Reagents from SAFC
Supply Solutions® are recognized the
world over for their quality. Our history
of providing DNA and RNA synthesis
reagents and supporting services is one
customers have depended upon in their
oglionucleotide programs for over 27 years.
1981 Biosyntech GmbH proprietary

nucleic acid synthesis
technologies founded by
Professor Hubert Köster
1986 Biosyntech acquired by Milligen,

a division of Millipore®, Inc.
1991 Transfer of Biosearch chemical

operations from California to
Hamburg, Germany
1993 First ISO 9001 biotechnology

company certified in Germany
1994 Integration into PerSeptive

Biosytems®, Inc.
To place an order or inquire about 1995 Acquisition of Controlled Pore

custom manufacturing contact your Glass (CPG®) technology
local SAFC representative or visit
www.safcsupplysolutions.com 1996 Manufacturing facilities
improved to state-of-the-art
1998 PerSeptive Biosystems®, Inc.

merges with Perkin-Elmer®
Corporation SAFC Supply Solutions® recognizes that, as
products move through pharmaceutical and
diagnostic development, technologies and
1998 Proligo® Reagents founded by
compliance requirements evolve.
SKW and NeXstar
With over 25 years of experience in our Hamburg
2002 Proligo® Reagents multi-ton manufacturing facility, we bring you Proligo®
Reagents, a dedicated and comprehensive line of
manufacturing capabilities
raw materials for oligonucleotides synthesis
introduced including DNA and RNA Pharmadites, standard
and modified Amidites, Linkers & Modifiers,
2005 Proligo® Reagents purchased by Supports & Solvents.
Sigma-Aldrich, Inc. for its SAFC® Contact your local representative to learn more
custom manufacturing group about our technical and quality package.
www.safcsupplysolutions.com
SAFC International Sites Proligo Reagents ®
Global E-mail: safcglobal@sial.com Nucleic acid solutions for genomic development

Phosphoramidites / Modifiers / Supports / Liquid Reagents
Argentina Germany Malaysia South Africa
Tel: +54 11 4556 1472 Tel: +49 (0)89 6513 1920 Tel: +60 3 5635 3321 Free Tel: 0800 1100 75
Fax: +54 11 4552 1698 Fax: +49 (0)89 6513 1919 Fax: +60 3 5635 4116 Free Fax: 0800 1100 79
E-Mail: info-argentina@sial.com E-Mail: deusafc@sial.com E-Mail: sam@sial.com Tel: +27 11 979 1188
Fax: +27 11 979 1119
Australia Greece Mexico E-Mail: rsa@sial.com
Free Tel: 1800 800 097 Tel: +30 2 10 994 8010 Free Tel: 01 800 007 5300
Free Fax: 1800 800 096 Fax: +30 2 10 994 3831 Free Fax: 01 800 712 9920 Spain
Tel: +61 (0)2 9841 0555 E-Mail: grcustsv@sial.com E-Mail: mexico@sial.com Tel: +34 91 657 2073
Fax: +61 (0)2 9841 0500 Fax: +34 91 490 5785
E-Mail: auscustserv@sial.com Hungary The Netherlands E-Mail: espsafc@sial.com
Tel: +36 (06) 1 235 9066 Tel: +31 (0)78 620 5414
Austria Fax: +36 (06) 1 235 9050 Fax: +31 (0)78 620 5424 Sweden
Tel: +43 (0)1 605 81 91 Ingyenes zöldtelefon: 06 80 355 355 Free Tel: 0800 022 9092 Tel: +46 (0)8 742 4200
Fax: +43 (0)1 605 81 20 Ingyenes zöld fax: 06 80 344 344 Free Fax: 0800 022 9093 Fax: +46 (0)8 742 4243
E-Mail: sigma@sigma.co.at E-Mail: info@sigma.sial.hu E-Mail: nldsaf@sial.com E-Mail: sweorder@sial.com
Belgium India New Zealand Switzerland

Free Tel: 0800 99560 Bangalore Free Tel: 0800 936 666 Swiss Free Call: 0800 80 00 80
Free Fax: 0800 99561 Tel: +91 80 5112 7272 Free Fax: 0800 937 777 Tel: +41 (0) 81 755 27 32
Tel: +31 78 6205414 Fax: +91 80 5112 7473 Fax: +41 (0) 81 755 27 70
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Fax: +91 11 2616 5611 Fax: +47 (0)23 176 010 United Kingdom
Brazil Mumbai E-Mail: nordicsafc@sial.com Poole
Tel: +55 11 3732 3100 Tel: +91 22 2570 2364 Tel: +44 (0)1202 712 305
Fax: +55 11 3733 5151 Fax: +91 22 2579 7589 Poland Fax: +44 (0)1202 712 235
E-Mail: brasafc@sial.com Hyderabad Tel: +48 61 829 0100 Gillingham
Tel: +91 40 5531 5488 Fax: +48 61 829 0120 Tel: +44 (0)1202 712305
Canada Fax: +91 40 5531 5466 E-Mail: plorsafc@sial.com Fax: +44 (0)1202 712235
Free Tel: 1800 565 1400 E-Mail: india@sial.com Manchester
Free Fax: 1800 265 3858 Portugal Tel: +44 (0)161 232 5500
Tel: +1 905 829 9500 Ireland Tel: +351 21 924 25 55 Fax: +44 (0)161 232 5501
Fax: +1 905 829 9292 Tel: +353 (0)1 404 1903 Fax: +351 21 924 26 10 E-Mail: safcuk@sial.com
E-Mail: canada@sial.com Fax: +353 (0)1 404 1911 Free Tel: 800 20 21 80
E-Mail: safcei@sial.com Free Fax: 800 20 21 78 United States
China E-Mail: espsafc@sial.com Toll Free: 800 244 1173
Tel: +86 21 6386 2766 Israel Call Collect: 314 534 4900
Fax: +86 21 6386 3966 Free Tel: +1 800 70 2222 Russia Toll Free Fax: 800 368 4661
E-Mail: china@sial.com Tel: +972 8 948 4100 Tel: +7 495 975 3321 Fax: 314 652 0000
Fax: +972 8 948 4200 Fax: +7 495 975 4792 E-Mail: safcglobal@sial.com
Czech Republic E-Mail: isrsafc@sial.com E-Mail: russafc@sial.com
Tel: +420 246 003 200 SAFC Proligo® Reagents
Fax: +420 246 003 291 Italy Singapore Georg-Heyken Str.14
E-Mail: czeorders@sial.com Telefono: +39 02 3341 7350 Tel: +65 6779 1200 21147 Hamburg
Fax: +39 02 3341 7201 Fax: +65 6779 1822 Germany
Denmark E-Mail: itasafc@sial.com E-Mail: sapl@sial.com Tel: +49 407 970 2250
Tel: +45 43 565 900 Fax: +49 407 970 2100
Fax: +45 43 565 905 Japan E-Mail: safcproligoreagents@sial.com
E-Mail: nordicsafc@sial.com Tel: +81 (0)3 5796 7340
Fax: +81 (0)3 5796 7345
KMI
Finland E-Mail: safcjp@sial.com 04353
Tel: +358 9 350 9250 0408
Fax: +358 9 350 92555 Korea SAFC Supply Solutions®, Pharmadite®, SAFC Proligo® Reagents, and
Activator 42® are a registered trademarks of Sigma-Aldrich
E-Mail: finorder@sial.com Tel: +82 (0)31 329 9000
Biotechnology L.P. and Sigma-Aldrich Co.
Fax: +82 (0)31 329 9090
Millipore® and CPG® are U.S. registered trademarks owned by Millipore
France E-Mail: hcjoo@sial.com Corporation or an affiliated company.
Tel: +33 (0)4 74 82 2882 Perkin-Elmer® and Perseptive Biosystems® are registered trademarks of
Fax: +33 (0)4 74 82 2890 the Perkin-Elmer Corporation, PerSeptive Biosystems, Inc. or other
subsidiaries in the U.S. and certain other countries.
E-Mail: fraadvsafc@sial.com
ABI® is a registered trademark of Applera Corporation or its subsidiaries.
Expedite™ is a trademark of Applera Corporation or its subsidiaries.
Welcome to the future of genomics
PolyGen® is a registered trademark of PolyGen GmbH.
*LNA® / Locked Nucleic Acid® is a registered trademark of
Exiqon A/S, Vedbaek, Denmark.
Cy trademarks are licensed through Molecular Probes which is now
fully owned by Invitrogen.
All other trademarks are the property of their respective owners.
Reproduction forbidden without permission.
LNA oligonucleotides and phosphoramidites are sold under license
from Exiqon A/S for research use only. Not for resale or for therapeutic
use or use in humans. Specifications are subject to change.
© 2008 SAFC All rights reserved

Printed in USA
www.safcsupplysolutions.com www.safcsupplysolutions.com

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SAFC International Sites Proligo Reagents ®

Global E-mail: safcglobal@sial.com Nucleic acid solutions for genomic development

Belgium India New Zealand Switzerland

© 2008 SAFC All rights reserved

Strength In Our History SAFC Supply Solutions® meet us at the

1981 Biosyntech GmbH proprietary

1986 Biosyntech acquired by Milligen,

1991 Transfer of Biosearch chemical

1993 First ISO 9001 biotechnology

1994 Integration into PerSeptive

To place an order or inquire about 1995 Acquisition of Controlled Pore

1998 PerSeptive Biosystems®, Inc.

SAFC Supply Solutions® Proligo® Reagents . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2

Manufacturing, Purification & Filling ..................................2

Pharmadite® for Pharmaceutical Applications . . . . . . . . . . . . . . . . . . . . . . . . . 8

Fast Deprotection Chemistries . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12

2'O-Methyl RNA Phosphoramidites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22

Labels and Modifications . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27

Controlled Pore Glass and Columns — CPG Free Flow . . . . . . . . . . . . . . . . 42

Columns for Synthesizers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 43

The Industry Leader in Manufacturing, Purification

• The dependability that your intellectual property • State-of-the-art process visualization

Process/Technology Features Reactions/Examples

Tritylation (Dimethoxytritylation) Introduction of triphenylmethyl protective groups

Silylation/Desilylation Introduction or removal of silyl protective groups

N- and O-Acylation Introduction of nucleobase and ribose protective groups N H 2 C O

silica gel including freely programmable gradient elution

Surface Chemistry Loading and capping of functionalized glass and organic R

• RP & SAX HPLC

• NMR (31P, 1H, C,

• Nucleic acid synthesis test

• Titration & “Wet Chemistry”

• Karl Fischer water analysis

Standard Bottles and Characteristics

60 ml septum 10.0 3.3 1 g, 2 g, 4 g

100 ml septum 9.5 5.1 5 g, 10 g 100 ml

1 oz 20/400 (30 ml) 7.8 3.1 0.25 g, 0.5 g, 1 g

2 oz 20/400 (60 ml) 9.4 3.8 1 g, 2 g

8 oz 24/400 (240 ml) 13.7 6.0 10 g 180 ml, 200 ml

8 oz 28/400 (240 ml) 13.7 6.0 5 g, 10 g 200 ml

16 oz 28/400 (480 ml) 17.0 7.2 10 g, 20 g 450 ml

1 g CPG bottle (10 ml) 5.8 2.5 1g

10 g CPG bottle (50 ml) 9.5 4.0 10 g

V-Vial 20/400 6.0 2.0 0.1 g, 0.25 g

2.5 L GL45 29.6 13.5 2500 ml

4 L 38/430 35.3 16.1 4000 ml

15 ml septum 60 ml septum 100 ml septum 1 oz 20/400 2 oz 20/400

8 oz 24/400 8 oz 28/400 16 oz 28/400 1 g CPG 10 g CPG

V-Vial 20/400 2.5 L GL45 4 L 38/430 Bulk Packaging

Worldwide Packaging Options

Standard drums and characteristics

200 L Returnable Drum, Standard 200 L 225 L 43 kg 970 mm 600 mm 2 mm

200 L Returnable Drum, Level Sensor 200 L 225 L 43 kg 970 mm 600 mm 2 mm

200 L Drum, Disposal 180 L 200 L 21 kg 884 mm 585 mm 1 mm

50 L Returnable Drum 45 L 50 L 12 kg 600 mm 363 mm 1.5 mm

45 L Returnable Drum 45 L 50 L 11 kg 600 mm 363 mm 1.5 mm

30 L Returnable Drum 25 L 30 L 10 kg 400 mm 380 mm 1.5 mm

30 L Drum, Disposal 25 L 30 L 3.4 kg 560 mm 280 mm 0.5 mm

18 L Returnable Drum 18 L 20 L 6.6 kg 442 mm 278 mm 1.5 mm

Additional Packaging Options (U.S. Only)

Standard drums and characteristics

50 L Returnable Drum 50 L 55 L 15 kg 23 inches 16 inches 1.5 mm

200 L Returnable Drum 200 L 220 L 47 kg 38 inches 24 inches 2 mm

200 L Returnable Drum, Level Sensor 200 L 220 L 47 kg 38 inches 24 inches 2 mm