Sanger 3500 Series Genetic Analyzer


The Applied Biosystems 3500 Series Genetic Analyzer is designed to maintain the unsurpassed application versatility that life science researchers expect from Applied Biosystems instruments.


  • Streamline administrative tasks—radio frequency identification (RFID) tags allow viewing, tracking, and reporting of critical reagents
  • Remove handling and mixing errors with preformulated consumables

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  • Improved data uniformity across instruments, runs, and capillaries
  • Easy-to-use software facilitates simple setup, operation, and maintenance
  • Flexibility to upgrade from 8 to 24 capillaries, to meet high-throughput needs

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  • Simplified instrument setup with single array (36 cm) for both sequencing and fragment analysis applications
  • Streamlined setup with standardized power plug and no external exhaust
  • Increased multiplexing with 6-dye capability

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Looking for more out of your instrument? Our newest genetic analyzer, the SeqStudio Flex, delivers the reliable performance you need while leveraging design and technological improvements to offer increased flexibility, connectivity, serviceability, and easier operation for users of all skill levels.

Explore the benefits of SeqStudio Flex ›

3500 Series Genetic Analyzers

It's accurate
Based on one of the most widely used, widely trusted sequencing methodologies available—Sanger sequencing—the 3500 Series Genetic Analyzer is designed to deliver the accuracy you demand.

It works the way you do
Designed with you in mind, the 3500 Series Genetic Analyzer gives you automated operation, easy-to-install consumables, electronic tracking of instrument performance and maintenance tasks, and integrated analysis software—so you can focus on the outcome.

It's flexible
The 3500 platform can run a wide variety of Sanger sequencing and fragment analysis applications, including de novo sequencing and resequencing (mutational profiling), microsatellite analysis, MLPA, AFLP, LOH, and SNP validation or screening.

It's backed by award-winning support
Keeping your lab operational is critical. Our technical and field service support staffs respond quickly to your calls, so that you can continue to respond to those who depend on you for results.

System components

3500 face

The Applied Biosystems 3500 and 3500xL Genetic Analyzers are supplied as follows:

  • Capillary electrophoresis instrument
  • 8-capillary (3500 System) or 24-capillary (3500xL System) array and polymer
  • DNA sequencing and/or fragment analysis reagents and consumables for system qualification
  • Dell™ computer workstation with flat-screen monitor
  • Integrated software for instrument control, data collection, quality control, and auto-analysis of sample files for basecalling and fragment sizing

System consumables

Capillary array

  • Capillary array with built-in frame is easy to install
  • Internally uncoated capillaries are supplied in assemblies of 8 or 24 capillaries per array
  • Integrated RFID label enables viewing, tracking, and reporting of capillary array information

Cathode buffer container

  • Prefilled container with 1X buffer to support all electrophoresis applications
  • Container has two separate compartments:
    • Left side contains the cathode buffer
    • Right side contains polymer waste from the capillary wash between injections
  • Integrated RFID label enables viewing, tracking, and reporting of critical information
  • Container made from recyclable plastic material, reducing the systems impact on the environment.
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Performance optimized polymer

  • Applied Biosystems POP-4, POP-6, and POP-7 polymers are designed in ready-to-use, load-and-run pouches
  • Integrated RFID label enables viewing, tracking, and reporting of polymer information
  • Multiple pouch volumes available to maximize work flow efficiency and minimize waste.

Anode buffer container

  • Prefilled container with 1X buffer
  • Integrated RFID label enables viewing, tracking, and reporting of critical information
  • Container made from recyclable plastic material, reducing the systems impact on the environment.

Snap in and run

  • Primary consumables contain novel, integrated radio frequency identification (RFID)-tagged labels that enable viewing, tracking, and reporting of critical information
  • Preformulated consumable packages make the 3500 the most user-friendly genetic analyzer on the market today
  • Automatic tracking minimizes administrative tasks and reduces the chances of error or omission

Putting you in the driver's seat

3500 Data Collection Software offers an intuitive dashboard design including:
  • Easy-to-read graphical displays to monitor the state of consumables
  • Handy maintenance scheduling calendar
  • Architecture simplifies plate setup, data collection, and analysis workflow

Operates on standard power

The 3500 Series is easy to install and operate:
  • Solid-state 505 nm excitation laser technology and thermal design minimizes instrument footprint
  • Plugs directly into standard power
  • No need for excess heat-removal ducting
RFIDInstrument automatically checks for the use of correct product and expiration dates
SAESecurity, audit and electronic signature capability to help compliance with governing regulations
8-capillary or 24-capillary modelsSelect the appropriate instrument to meet your laboratory throughput needs
FlexibilityAllows you to adhere to your lab's development requirements—sequencing or fragment analysis applications

Beyond repair to proactive care
The AB Assurance Plan is our premium repair plan, designed to maximize instrument performance and help ensure availability of critical systems. The AB Assurance Plan will help keep your laboratory running smoothly with preventive maintenance, proactive instrument monitoring and—should one of your instruments require repair—fast response.

Qualification services
In regulated industries, compliance with government and international standards requires documented verification that your systems are installed and functioning according to their manufacturers’ specifications. Whether you need Installation Qualification and Operation Qualification (IQ/OQ) or Instrument Performance Qualification (PQ), our qualification services provide audit-quality data to share with your regulated body and verify that your instrument is working according to the manufacturer's specifications.

Computer System Validation (CSV)
An instrument qualification service is only the starting point to your validation. Our Compliance Services professionals partner with you and can help you get into production faster, while controlling CSV costs and getting you audit-ready faster.

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Service plan options for the 3500 Series Genetic Analyzers

 AB Assurance with qualification services*AB Assurance with system performance check*
On-site response time for repairs (business days)Guaranteed 2 business daysGuaranteed 2 business days
Remote instrument monitoring and diagnostics
Priority phone and email access to instrument support
Application technical support
Hearing Loss Research Panel
Instrument operating software
Instrument qualification services 
Instrument system performance check 
Planned maintenance
Parts, labor and travel

*Terms and conditions apply. Contact your local service representative for terms and conditions applicable to your region.
†Guaranteed service timeline applies only to North America region.

Sanger sequencing trade-in offer

Trade in your Applied Biosystems™ 3100 or 3130 Series Genetic Analyzer for a new 3500 Series Genetic Analyzer at an incredible price.

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Product ordering


For Research Use Only. Not for use in diagnostic procedures.