Product Class: Kit

NEBNext® rRNA Depletion Kit (Human/Mouse/Rat) with RNA Sample Purification Beads

This kit will be discontinued on December 15, 2024.

An updated version of this kit (NEB #E7405) is available for superior performance.

Product Introduction

The NEBNext rRNA Depletion Kit (Human/Mouse/Rat) with RNA Sample Purification Beads employs an RNaseH-based method (1), (2) to deplete both cytoplasmic (5S rRNA, 5.8S rRNA, 18S rRNA and 28S rRNA) and mitochondrial ribosomal RNA (12S rRNA and 16S rRNA) from human, mouse and rat total RNA preparations. This product is suitable for both intact and degraded RNA (e.g. FFPE RNA). The resulting rRNA-depleted RNA is suitable for RNA-Seq, random-primed cDNA synthesis, or other downstream RNA analysis applications. For added convenience, this kit contains NEBNext RNA Sample Purification Beads (Agencourt® RNAClean® XP beads from Beckman Coulter).

Catalog # Size Concentration
E6350S 6.0 reactions
E6350L 24.0 reactions
E6350X 96.0 reactions

Product Information

Description

The NEBNext rRNA Depletion Kit (Human/Mouse/Rat) with RNA Sample Purification Beads employs an RNaseH-based method (1), (2) to deplete both cytoplasmic (5S rRNA, 5.8S rRNA, 18S rRNA and 28S rRNA) and mitochondrial ribosomal RNA (12S rRNA and 16S rRNA) from human, mouse and rat total RNA preparations. This product is suitable for both intact and degraded RNA (e.g., FFPE RNA). The resulting rRNA-depleted RNA is suitable for RNA-Seq, random-primed cDNA synthesis, or other downstream RNA analysis applications. For added convenience, this kit contains NEBNext RNA Sample Purification Beads (Agencourt RNAClean XP beads from Beckman Coulter).
 
NEBNext rRNA Depletion Kit Workflow Times
rRNA Depletion
This product is related to the following categories:

Kit Components

Kit Components

The following reagents are supplied with this product:

NEB # Component Name Component # Stored at (°C) Amount Concentration
  • E6350S     Multi-temperature    
      NEBNext® rRNA Depletion Kit (Human/Mouse/Rat) E6310S -20 1 x 6 reactions Not Applicable
      RNase H Reaction Buffer E6312-2VIAL -20 1 x 0.012 ml Not Applicable
      NEBNext rRNA Depletion Solution E6313-2VIAL -20 1 x 0.01 ml Not Applicable
      NEBNext Probe Hybridization Buffer E6314-2VIAL -20 1 x 0.012 ml Not Applicable
      DNase I Reaction Buffer E6315-2VIAL -20 1 x 0.03 ml Not Applicable
      DNase I (RNase-free) E6316-2VIAL -20 1 x 0.015 ml Not Applicable
      Nuclease-free Water E6317-2VIAL -20 1 x 0.4 ml Not Applicable
      NEBNext RNase H E6318-2VIAL -20 1 x 0.012 ml Not Applicable
      NEBNext® RNA Sample Purification Beads E6351S 4 1 x 0.66 ml Not Applicable
      NEBNext® RNA Sample Purification Beads E6351SVIAL 4 1 x 0.66 ml Not Applicable
  • E6350L     Multi-temperature    
      NEBNext® rRNA Depletion Kit (Human/Mouse/Rat) E6310L -20 1 x 24 reactions Not Applicable
      RNase H Reaction Buffer E6312-3VIAL -20 1 x 0.048 ml Not Applicable
      NEBNext rRNA Depletion Solution E6313-3VIAL -20 1 x 0.024 ml Not Applicable
      NEBNext Probe Hybridization Buffer E6314-3VIAL -20 1 x 0.048 ml Not Applicable
      DNase I Reaction Buffer E6315-3VIAL -20 1 x 0.12 ml Not Applicable
      DNase I (RNase-free) E6316-3VIAL -20 1 x 0.06 ml Not Applicable
      Nuclease-free Water E6317-3VIAL -20 1 x 1.5 ml Not Applicable
      NEBNext RNase H E6318-3VIAL -20 1 x 0.048 ml Not Applicable
      NEBNext® RNA Sample Purification Beads E6351L 4 1 x 2.64 ml Not Applicable
      NEBNext® RNA Sample Purification Beads E6351LVIAL 4 1 x 2.64 ml Not Applicable
  • E6350X     Multi-temperature    
      NEBNext® rRNA Depletion Kit (Human/Mouse/Rat) E6310X -20 1 x 96 reactions Not Applicable
      RNase H Reaction Buffer E6312-4VIAL -20 1 x 0.192 ml Not Applicable
      NEBNext rRNA Depletion Solution E6313-4VIAL -20 1 x 0.096 ml Not Applicable
      NEBNext Probe Hybridization Buffer E6314-4VIAL -20 1 x 0.192 ml Not Applicable
      DNase I Reaction Buffer E6315-4VIAL -20 1 x 0.48 ml Not Applicable
      DNase I (RNase-free) E6316-4VIAL -20 1 x 0.24 ml Not Applicable
      Nuclease-free Water E6317-4VIAL -20 1 x 6 ml Not Applicable
      NEBNext RNase H E6318-4VIAL -20 1 x 0.192 ml Not Applicable
      NEBNext® RNA Sample Purification Beads E6351X 4 1 x 10.6 ml Not Applicable
      NEBNext® RNA Sample Purification Beads E6351XVIAL 4 1 x 10.6 ml Not Applicable

Properties & Usage

Materials Required but not Supplied

  • Magnetic Rack (Alpaqua, Cat. #A001322 or equivalent)
  • Thermal Cycler

References

  1. Adiconis, X. et al (2013). Comparative analysis of RNA sequencing methods for degraded or low-input samples. Nature Methods. 10, 623-629.
  2. Morlan, J.D. et al. (2012). Selective depletion of RNA enables whole transcriptome profiling of archival fixed tissue. PLos One. 77, e42882.

Protocols, Manuals & Usage

Protocols

  1. Protocol for use with NEBNext® rRNA Depletion Kit (Human/Mouse/Rat) (E6310, E6350)

Manuals

The Product Manual includes details for how to use the product, as well as details of its formulation and quality controls.

FAQs & Troubleshooting

FAQs

  1. Can I use this product with degraded RNA or fragmented RNA?
  2. What total RNA input should I use?
  3. What is the percentage of rRNA left after depletion?
  4. What is the percentage of rRNA left after depletion?
  5. I am currently using RNAClean XP magnetic beads. Will the NEBNext RNA Sample Purification Beads be a suitable replacement?
  6. To remove ribosomal RNA from total RNA, should I use the NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB #E7490) or the NEBNext rRNA Depletion Kit (NEB #E6310)?
  7. Does the NEBNext® rRNA Depletion Kit (Human/Mouse/Rat) work for ribosomal footprinting or profiling application?
  8. Does the NEBNext® Globin mRNA & rRNA Depletion Kit (Human/Mouse/Rat) work for ribosomal footprinting or profiling applications?
  9. Can the enriched RNA resulting from the NEBNext depletion kit be used in long read sequencing applications?

Quality, Safety & Legal

Quality Assurance Statement

Quality Control tests are performed on each new lot of NEB product to meet the specifications designated for it. Specifications and individual lot data from the tests that are performed for this particular product can be found and downloaded on the Product Specification Sheet, Certificate of Analysis, data card or product manual. Further information regarding NEB product quality can be found here.

Specifications

The Specification sheet is a document that includes the storage temperature, shelf life and the specifications designated for the product. The following file naming structure is used to name these document files: [Product Number]_[Size]_[Version]

Safety DataSheets

The following is a list of Safety Data Sheet (SDS) that apply to this product to help you use it safely.

Legal and Disclaimers

Products and content are covered by one or more patents, trademarks and/or copyrights owned or controlled by New England Biolabs, Inc (NEB). The use of trademark symbols does not necessarily indicate that the name is trademarked in the country where it is being read; it indicates where the content was originally developed. The use of this product may require the buyer to obtain additional third-party intellectual property rights for certain applications. For more information, please email busdev@neb.com.

This product is intended for research purposes only. This product is not intended to be used for therapeutic or diagnostic purposes in humans or animals.

New England Biolabs (NEB) is committed to practicing ethical science – we believe it is our job as researchers to ask the important questions that when answered will help preserve our quality of life and the world that we live in. However, this research should always be done in safe and ethical manner. Learn more.

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