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96-Well High-Throughput DNA Plate Oligo Synthesis

Custom DNA oligonucleotides synthesized in 96-well plate format for screening, PCR/qPCR, NGS, cloning, CRISPR workflows, and automated assay development.

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Overview Formats How It Works Pricing Modifications Applications Why Choose Us References FAQ Contact

Overview

High-throughput DNA plate oligo synthesis enables parallel production of multiple DNA sequences in standardized 96-well plate formats for scalable, reproducible, automation-ready workflows.

Our 96-well oligo synthesis service supports custom DNA oligo plates, primer plate oligos, modified DNA oligos, and duplex DNA oligo plates for high-throughput molecular biology workflows.

Bio-Synthesis supports DNA plate oligos in single-stranded, primer mix, and duplexed formats. Plate-based synthesis is especially useful when researchers need many related sequences, assay panels, primer sets, indexing oligos, or screening libraries delivered in an organized plate map.

Oligos can be shipped dry or resuspended to your specifications, with optional purification, ESI-MS QC, and functional modifications such as biotin, fluorescent dyes, amino, thiol, azide, alkyne, cholesterol, and other project-specific groups.

High-throughput DNA plate oligo synthesis workflow showing automated liquid handling, 96-well oligo plate formatting, QC, normalization, and delivery

High-throughput DNA plate oligo synthesis workflow. Automated liquid handling and 96-well plate formatting enable scalable and reproducible DNA oligo production.

Service Highlights

96-well

Plate format

24+

Minimum oligos

ssDNA

Single-stranded plates

Primer Mix

2 oligos per well

Duplex

Annealed pairs

Scale

Built for parallel synthesis

Produce many DNA sequences in a defined well-by-well layout for efficient screening and assay workflows.

Automation

Plate-map ready

Designed for downstream liquid handling, robotic workflows, and organized sample tracking.

Flexible

Multiple DNA formats

Choose ssDNA plate oligos, primer mix DNA, or annealed duplexed DNA depending on your application.

DNA Plate Oligo Formats

ssDNA

Single-stranded DNA plates

Individual DNA oligos arrayed into 96-well plates for primer panels, probe sets, NGS workflows, and general molecular biology use.

Primer Mix

Premixed primer sets

Two oligos per well, premixed for PCR, qPCR, screening panels, and paired-primer workflows.

Duplex

Duplexed DNA plates

One annealed oligo pair per well for dsDNA applications, binding studies, cloning support, and assay development.

Plate delivery options

NA plate oligos may be shipped dry or resuspended to your specifications. Duplexed DNA plates are shipped dry unless otherwise arranged during quoting.

How High-Throughput DNA Plate Oligo Synthesis Works

The workflow is designed to convert a sequence list and plate layout into organized, ready-to-use DNA oligos for high-throughput experiments.

Step 1

Sequence submission

Submit DNA sequences, desired scale, plate format, strand format, modifications, and delivery preference.

Step 2

Plate layout review

Each sequence is mapped to a specific well position for traceability, automation, and downstream sample handling.

Step 3

Parallel synthesis

Oligos are synthesized using automated solid-phase phosphoramidite chemistry across the plate.

Step 4

Processing

Completed oligos are cleaved, deprotected, and processed according to the selected format and scale.

Step 5

Purification and QC

Selected purification and ESI-MS QC options can be applied depending on project requirements.

Step 6

Plate delivery

Final oligos are delivered in labeled plates with plate-map organization for direct experimental use.

96-Well DNA Plate Oligo Pricing

Select a pricing tab below for single-stranded DNA, primer mix DNA, or duplexed DNA in 96-well plate format.

Single-Stranded DNA in 96-Well Plates

Shipped dry or resuspended to your specifications. Minimum order: 24 oligos per 96-well plate.

Product Length Pricing (Desalted) Purification 10% QC by ESI-MS 100% QC by ESI-MS
25 nmol DNA Plate Oligo 15-60 bases $0.24 USD/base n/a Free $15/oligo
100 nmol DNA Plate Oligo 10-90 bases $0.40 USD/base $35.00 Free $15/oligo
250 nmol DNA Plate Oligo 5-100 bases $0.65 USD/base $45.00 Free $15/oligo
1 µmol DNA Plate Oligo 5-100 bases $1.50 USD/base $65.00 Free $15/oligo

Primer Mix DNA in 96-Well Plates

Two premixed oligos per well. Shipped dry or resuspended to your specifications. Minimum order: 24 oligos per 96-well plate.

Product Length Pricing (Desalted) Purification QC
25 nmol DNA Plate Oligo 15-60 bases $0.20 USD/base n/a n/a
100 nmol DNA Plate Oligo 10-90 bases $0.45 USD/base $35.00 n/a
250 nmol DNA Plate Oligo 5-100 bases $0.95 USD/base $45.00 n/a
1 µmol DNA Plate Oligo 5-100 bases $1.95 USD/base $65.00 n/a

Duplexed DNA in 96-Well Plates

One annealed oligo pair per well. Shipped dry. Minimum order: 24 duplexes per 96-well plate.

Product Length Pricing Purification 10% QC by ESI-MS 100% QC by ESI-MS
100 nmol DNA Plate Duplex Oligo 10-90 bases $0.80 USD/base $55.00 Free $20/oligo
250 nmol DNA Plate Duplex Oligo 5-100 bases $1.30 USD/base $70.00 Free $20/oligo
1 µmol DNA Plate Duplex Oligo 5-100 bases $2.50 USD/base $95.00 Free $20/oligo
Annealing fee: $256.00 USD per plate of duplexed DNA.

QC note

ESI-MS = Electrospray Ionization Mass Spectrometry. Pricing and feasibility may vary depending on sequence complexity, modifications, purification, and project-specific requirements.

Modification Options

DNA plate oligos can be configured with common terminal, internal, affinity, fluorescent, and reactive modifications depending on sequence design and application.

Affinity

Biotin and affinity tags

Useful for capture, immobilization, pull-down, and detection workflows.

Fluorescent

Dye-labeled oligos

Options may include FAM, HEX, Cy dyes, and other labels for probe and assay development.

Reactive

Conjugation-ready groups

Amino, thiol, azide, alkyne, and related handles support downstream conjugation chemistry.

Hydrophobic

Cholesterol and delivery groups

Hydrophobic modifications may be added for membrane association and specialized delivery research.

Backbone

Stability modifications

Backbone modifications such as phosphorothioate linkages may be requested where compatible.

Custom

Project-specific designs

Custom modification placement and combinations can be reviewed during technical quoting.

Applications

Common applications

  • PCR and qPCR primer panels
  • NGS adapter and indexing oligos
  • Hybridization probe sets
  • CRISPR screening support
  • Cloning and synthetic biology workflows
  • High-throughput assay development

Why use plate format?

  • Organized well-by-well sequence tracking
  • Reduced manual handling for large projects
  • Compatibility with liquid handlers
  • Scalable production of related oligo sets
  • Flexible delivery dry or in solution

Why Choose Bio-Synthesis for DNA Plate Oligos?

Modified Plates

Functionalized oligos in plate format

Support for biotin, fluorescent dyes, amino, thiol, azide, alkyne, cholesterol, and other project-specific modifications.

Flexible Formats

ssDNA, primer mix, and duplex DNA

Select the plate format that fits PCR, qPCR, NGS, CRISPR, probe panel, cloning, or screening workflows.

Technical Review

Sequence and plate-map support

Technical consultation helps align scale, plate layout, purification, QC, and delivery format with your experiment.

Best fit: researchers who need more than commodity plate oligos — especially projects requiring modified, duplexed, custom-formatted, or QC-supported DNA oligos in 96-well plates.

FAQ

Can you provide duplexed DNA plates?

Yes. Duplexed DNA plates contain one annealed oligo pair per well. An annealing fee applies per plate.

Can modified DNA oligos be ordered in plate format?

Yes. Common modifications such as biotin, fluorescent dyes, amino, thiol, azide, alkyne, and cholesterol can be reviewed upon request.

What information should I provide for a quote?

Please provide sequence list, plate map or layout, desired scale, ssDNA/primer mix/duplex format, modifications, purification, QC preference, and dry or resuspended delivery.

Can I order modified oligos in the same 96-well plate?

Yes. Multiple modification designs may be reviewed, but feasibility depends on modification type, location, sequence composition, and plate layout.

What is the minimum order for 96-well DNA plates?

A minimum of 24 oligos is required for 96-well plate orders.

Can DNA plate oligos be shipped dry?

Yes. Oligos can be shipped dry or resuspended to your specifications, depending on the selected product format.

More FAQ'sAll FAQ's

Talk to a Scientist

Share your sequence list, plate layout, scale, modification needs, purification requirements, and delivery preference. Our team can review feasibility and recommend the most suitable DNA plate oligo format.

Plate map review Modification strategy Purification planning QC options

Direct contact

What to include

  • Sequence list and plate format
  • Desired scale
  • ssDNA, primer mix, or duplex format
  • Modification requirements
  • Purification and QC preference
  • Dry or resuspended delivery
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Scientific Context & References

Selected references provide background on phosphoramidite oligonucleotide synthesis, large-scale DNA synthesis, and synthetic biology workflows.

  1. Beaucage, S. L.; Caruthers, M. H. Deoxynucleoside phosphoramidites — A new class of key intermediates for deoxypolynucleotide synthesis. Tetrahedron Letters 1981, 22, 1859–1862. DOI
  2. Kosuri, S.; Church, G. M. Large-scale de novo DNA synthesis: technologies and applications. Nature Methods 2014, 11, 499–507. DOI
  3. Hughes, R. A.; Ellington, A. D. Synthetic DNA synthesis and assembly: putting the synthetic in synthetic biology. Cold Spring Harbor Perspectives in Biology 2017, 9, a023812. DOI
  4. Kosuri, S. et al. Scalable gene synthesis by selective amplification of DNA pools from high-fidelity microchips. Nature Biotechnology 2010, 28, 1295–1299. DOI
Note: These references are included for scientific background and do not imply clinical claims.

Why Choose Bio-Synthesis

Trusted by biotech leaders worldwide for over 45+ years of delivering high quality, fast and scalable synthetic biology solutions.

Greetings Researchers,

Please be advised that any information, guidelines, writeups, and oral/video/graphic content on our website are intended solely as general guidelines.
It is the researcher's sole responsibility to conduct thorough research on the designs of the products intended for their experiments before submitting
their designs to Biosynthesis for review of production feasibility.
Thank you for your understanding.

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