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96-Well High-Throughput RNA Plate Oligo Synthesis

Custom RNA oligonucleotides synthesized in 96-well plate format for RNAi screening, siRNA duplexes, antisense RNA, assay development, probe design, and high-throughput molecular biology workflows.

Overview

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

Bio-Synthesis supports custom RNA oligo plates in single-stranded RNA and duplexed RNA formats. This service is designed for researchers who need organized RNA sequence panels, siRNA duplexes, RNAi screening sets, modified RNA libraries, or assay-ready RNA oligos delivered in a defined plate map.

RNA plate oligos may be shipped dry or resuspended to your specifications, with options for standard RNA bases, 2'-OMe, 2'-F RNA, RNase-free HPLC purification, ESI-MS QC, and project-specific modification strategies.

This service supports 96-well RNA oligo plates, RNA plate synthesis, siRNA plate libraries, duplex RNA plates, and high-throughput RNA oligonucleotide production for screening and assay development. Researchers working with antisense oligonucleotides (ASO) can also request modified RNA chemistry and application-specific QC options.

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

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

Service Highlights

96-well

RNA plate format

24+

Minimum oligos or duplexes

ssRNA

Single-stranded plates

Duplex

Annealed RNA pairs

RNase-free

HPLC option

RNAi

Built for RNA screening

Support siRNA, RNAi, and RNA sequence panels with well-by-well tracking and scalable plate formatting.

Modified RNA

2'-OMe and 2'-F options

Add stability-oriented RNA chemistry options where compatible with the sequence and application.

QC

Purification and ESI-MS support

Select RNase-free HPLC and ESI-MS QC options to match downstream research needs.

Scientific Background

High-throughput RNA oligonucleotide synthesis is based on solid-phase phosphoramidite chemistry, adapted for RNA-specific 2'-hydroxyl protection strategies. RNA synthesis typically employs 2'-O-protecting groups such as TBDMS or TOM to ensure selective chain elongation and stability during synthesis cycles.

Compared to DNA, RNA oligonucleotides require more stringent handling conditions due to increased susceptibility to hydrolysis and RNase degradation. Post-synthesis processing includes deprotection, cleavage, and optional purification such as RNase-free HPLC.

Modified RNA chemistries such as 2'-O-methyl (2'-OMe) and 2'-fluoro (2'-F) enhance nuclease resistance, improve stability, and are widely used in RNAi, antisense therapeutics, and functional genomics studies.

RNA Plate Oligo Formats

ssRNA

Single-stranded RNA plates

Individual RNA oligos arrayed into 96-well plates for antisense RNA, probe development, guide RNA components, RNA controls, and assay panels.

Duplex RNA

Annealed RNA duplex plates

One oligo pair per well, annealed and delivered in plate format for siRNA, RNAi screening, and duplex RNA workflows.

Modified

Modified RNA plates

RNA base, 2'-OMe, and 2'-F RNA options help support stability, nuclease resistance, and specialized assay designs.

Plate delivery options

Single-stranded RNA oligos may be shipped dry or resuspended to your specifications. Duplexed RNA plates contain one annealed oligo pair per well and are shipped dry unless otherwise arranged during quoting.

How High-Throughput RNA Plate Oligo Synthesis Works

The workflow is designed to convert RNA sequence lists and plate layouts into organized, ready-to-use RNA oligos for high-throughput experiments.

Step 1

Sequence submission

Submit RNA sequences, desired scale, plate format, strand format, chemistry type, and delivery preference.

Step 2

Plate layout review

Each sequence or duplex pair is mapped to a specific well position for traceability and automation compatibility.

Step 3

Parallel RNA synthesis

RNA oligos are synthesized using automated solid-phase chemistry with RNA-compatible protection and deprotection workflows.

Step 4

Deprotection and processing

Completed RNA oligos are cleaved, deprotected, and processed using RNA-aware handling practices.

Step 5

Purification and QC

RNase-free HPLC and ESI-MS QC options can be selected depending on project requirements.

Step 6

Plate delivery

Final RNA oligos are delivered in labeled 96-well plates with organized plate-map support.

96-Well RNA Plate Oligo Pricing

Select a pricing tab below for single-stranded RNA or duplexed RNA in 96-well plate format.

Single-Stranded RNA in 96-Well Plates
Shipped dry or resuspended to your specifications. Minimum order: 24 or 96 oligos depending on project configuration.
Product Length RNA Base 2'-OMe/2'-F RNA RNase-free HPLC 10% ESI-MS 100% ESI-MS
100 nmol RNA Plate Oligo 10-60 bases $8.50 USD/base $12.50 USD/base $75.00 USD Free $20/oligo
250 nmol RNA Plate Oligo 5-60 bases $10.50 USD/base $15.50 USD/base $85.00 USD Free $20/oligo
1 µmol RNA Plate Oligo 5-60 bases $20.00 USD/base $25.00 USD/base $95.00 USD Free $20/oligo
Duplexed RNA in 96-Well Plates
One annealed oligo pair per well. Shipped dry. Minimum order: 24 duplexes per 96-well plate.
Product Length RNA Base 2'-OMe/2'-F RNA RNase-free HPLC 10% ESI-MS 100% ESI-MS
100 nmol RNA Plate Oligo 10-90 bases $12.50 USD/base $14.50 USD/base $105.00 USD Free $20/oligo
250 nmol RNA Plate Oligo 5-100 bases $14.00 USD/base $18.50 USD/base $125.00 USD Free $20/oligo
1 µmol RNA Plate Oligo 5-100 bases $25.00 USD/base $28.00 USD/base $135.00 USD Free $20/oligo
Annealing fee: $256.00 USD per plate of duplexed RNA.
QC note
ESI-MS = Electrospray Ionization Mass Spectrometry. Pricing and feasibility may vary depending on RNA sequence complexity, modifications, purification, duplex design, and project-specific requirements.

RNA Chemistry and Modification Options

RNA plate oligos can be configured with standard RNA bases, stability-enhancing sugar modifications, terminal labels, and reactive handles depending on sequence design and application.

RNA Base

Standard RNA oligos

Useful for RNA controls, RNAi-related studies, hybridization assays, and sequence-defined RNA panels.

2'-OMe

2'-O-methyl RNA

A common stability-oriented RNA modification for nuclease resistance and assay optimization.

2'-F RNA

2'-fluoro RNA

Supports modified RNA designs requiring improved stability or specialized binding behavior.

Affinity

Biotin and affinity tags

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

Fluorescent

Dye-labeled RNA

Fluorophore-labeled RNA oligos can support probe, imaging, and assay development applications.

Reactive

Conjugation-ready groups

Amino, thiol, azide, alkyne, and other handles may be reviewed for project-specific RNA conjugation strategies.

Applications

Common applications

  • RNAi screening and siRNA duplex panels
  • Antisense RNA and modified RNA panels
  • miRNA mimic and inhibitor research
  • RNA probe and hybridization workflows
  • RNA control oligos and assay development
  • High-throughput RNA functional screening

Why use RNA plate format?

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

RNA vs DNA Plate Oligo Synthesis

RNA and DNA plate oligo synthesis both support high-throughput, plate-map-based workflows, but RNA requires additional chemistry controls, RNase-aware handling, and application-specific purification choices.

Category RNA Plate Oligos DNA Plate Oligos
Chemistry RNA phosphoramidite synthesis with 2'-OH protection strategies such as TBDMS or TOM. DNA phosphoramidite synthesis without RNA-specific 2'-OH protection.
Handling More sensitive to hydrolysis and RNase contamination; RNase-free processing is important. Generally more chemically stable and less sensitive to nuclease contamination.
Typical applications siRNA, RNAi screening, miRNA research, antisense RNA, modified RNA panels, RNA probes. PCR/qPCR primers, NGS adapters, DNA probes, cloning, CRISPR support, DNA screening panels.
Modification strategy 2'-OMe and 2'-F modifications can improve nuclease resistance and stability. Biotin, dyes, amino, thiol, azide, alkyne, PS linkages, and other DNA modifications are common.
Purification / QC RNase-free HPLC and ESI-MS QC options help support sensitive RNA workflows. Desalting, HPLC, PAGE, and ESI-MS options may be used depending on product format.
Selection guidance

Choose RNA plate synthesis when biological function requires RNA or modified RNA chemistry. Choose DNA plate oligos when the workflow requires primers, DNA probes, adapters, or more cost-effective DNA screening panels.

Why Choose Bio-Synthesis for RNA Plate Oligos?

Technical Review

RNA-aware feasibility review

Our team can review sequence length, composition, modified bases, duplex design, and purification requirements before production.

Flexible

ssRNA and duplex support

Choose single-stranded RNA plates or annealed duplex RNA plates for screening and assay workflows.

QC

RNase-free HPLC and ESI-MS

Select purification and QC options that align with your downstream RNA workflow and quality expectations.

FAQ

Is RNase-free HPLC available?

Yes. RNase-free HPLC is available as a purification option for RNA plate oligos.

What is the minimum order for RNA plates?

A minimum of 24 oligos or duplexes is required for 96-well plate orders. Some configurations may require 96 oligos.

Can 2'-OMe and 2'-F RNA be ordered in plate format?

Yes. 2'-OMe and 2'-F RNA options are available depending on sequence design, length, and project feasibility.

Can duplexed RNA plates be annealed?

Yes. Duplexed RNA plates contain one annealed oligo pair per well. A $256.00 USD annealing fee applies per plate.

Can modified RNA oligos be ordered in plate format?

Yes. Common RNA modifications and functional groups can be reviewed upon request, including 2'-OMe, 2'-F, biotin, fluorescent dyes, amino, thiol, azide, and alkyne groups.

What is a 96-well RNA oligo plate?

A 96-well RNA oligo plate contains up to 96 individual RNA sequences or duplex pairs arranged in a standardized format for high-throughput workflows and automation.

What is RNA plate synthesis used for?

RNA plate synthesis is used for siRNA screening, RNAi studies, antisense research, probe development, modified RNA libraries, and high-throughput molecular biology applications.

What RNA plate formats are available?

Single-stranded RNA and duplexed RNA oligos are available in 96-well plate format.

Talk to a Scientist

Share your RNA sequence list, plate layout, scale, modification needs, purification requirements, duplex design, and delivery preference. Our team can review feasibility and recommend the most suitable RNA plate oligo format.
RNA plate map review2'-OMe / 2'-F strategyRNase-free HPLC ESI-MS QC options
Direct contact
Email: sales@biosyn.com
Phone: +1-800-227-0627
Direct: +1-972-420-8505
What to include
  • RNA sequence list and plate format
  • Desired scale
  • ssRNA or duplex RNA format
  • 2'-OMe / 2'-F or other modification needs
  • Purification and QC preference
  • Dry or resuspended delivery
Fast responseTechnical consultationConfidential

References

  • Beaucage, S. L.; Caruthers, M. H. (1981). Deoxynucleoside phosphoramidites — a new class of key intermediates for deoxypolynucleotide synthesis. Tetrahedron Letters. DOI
  • Usman, N.; Ogilvie, K. K.; Jiang, M. Y.; Cedergren, R. J. (1987). Automated chemical synthesis of long oligoribonucleotides using 2'-O-silylated ribonucleoside 3'-O-phosphoramidites. J. Am. Chem. Soc.. DOI
  • Crooke, S. T.; Witztum, J. L.; Bennett, C. F.; Baker, B. F. (2018). RNA-targeted therapeutics. Cell Metabolism. DOI
  • Khvorova, A.; Watts, J. K. (2017). The chemical evolution of oligonucleotide therapies of clinical utility. Nature Biotechnology. DOI
  • Elbashir, S. M.; et al. (2001). Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature. DOI

Why Choose Bio-Synthesis

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