Product Class: Kit

Exo-CIP™ Rapid PCR Cleanup Kit

This product was discontinued on September 22, 2026 and replaced with Exo-CIP Rapid PCR Cleanup Mix (NEB #M1058) 

  • Catalog # E1050 was discontinued on September 22, 2026

Product Introduction

  • Rapidly degrade residual PCR primers and dephosphorylate excess dNTPs after amplification
  • Reaction complete in 4 minutes
  • Thermolabile formulation can be heat inactivated in 1 minute at 80°C
  • PCR product can be used directly in downstream applications
  • Compatible with commonly-used reaction buffers
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Product Information

Description

The Exo-CIP Rapid PCR Cleanup Kit contains optimized formulations of thermolabile Exonuclease I and thermolabile Calf Intestinal Phosphatase (CIP) and is used to rapidly degrade residual PCR primers and dephosphorylate excess dNTPs after amplification. Degradation occurs in only 4 minutes at 37°C, and is immediately followed by rapid inactivation of the enzymes by heating for 1 minute at 80°C. In just 5 minutes, the PCR product is ready for downstream analysis, such as Sanger Sequencing, SNP detection, or library preparation for NGS. The Exo-CIP Rapid PCR Cleanup Kit is compatible with all commonly-used PCR buffers.


Figure 1. Exo-CIP Rapid PCR Cleanup Kit workflow


1 µl of Exo-CIP tube A (thermolabile Exo I) and 1 µl of Exo-CIP tube B (thermolabile CIP) are added to the PCR product to degrade excess primers and dNTPs. The mixture is incubated at 37°C for 4 minutes, followed by a 1 minute incubation at 80°C to irreversibly inactivate both enzymes. The cleaned PCR product is ready for downstream applications or analysis.


Figure 2. Exo-CIP Rapid PCR Cleanup Kit enables consistent read lengths for amplicons of varying length



PCR products of varying lengths were treated with Exo-CIP Rapid PCR Cleanup Kit or ExoSAP-IT PCR Cleanup Reagent following manufacturer-recommended protocols (5 min vs. 30 min). 3 µl of treated samples was used as input for Sanger sequencing on an ABI 3730 DNA Analyzer using BigDye Terminator chemistry (v3.1). Samples treated with Exo-CIP Rapid PCR Cleanup Kit yielded read lengths over 650 bases, matching samples treated with ExoSAP-IT PCR Cleanup Reagent.


Figure 3. Comparison of sequencing results with Exo-CIP Rapid PCR Cleanup Kit



A 1.5 kb amplicon treated with Exo-CIP Rapid PCR Cleanup Kit prior to sequencing eliminates miscalls and lowers background interference compared to untreated samples. The sequencing results were examined at different locations from the primer binding site. Results seen with Exo-CIP Rapid PCR Cleanup Kit are comparable to ExoSAP-IT PCR Cleanup Reagent.
This product is related to the following categories:
PCR & DNA Cleanup,
Nucleic Acid Purification,
This product can be used in the following applications:
PCR & Reaction Cleanup,
DNA Amplification, PCR & qPCR

Properties & Usage

FAQs & Troubleshooting

FAQs

  1. Do I have to purify my PCR amplicon after cleanup?
  2. How should I store my treated samples after the enzymatic cleanup reaction?
  3. Why are my sequence reads less than 600 bases even when the electropherogram looks great?
  4. Why do I see two peaks (one large and one small) overlapping in one position of the electropherogram?
  5. Is my master mix / PCR buffer compatible with the Exo-CIP Rapid PCR Cleanup Kit?
  6. What are the differences between Exo-CIP Rapid PCR Cleanup Mix (NEB #M1058) and the Exo-CIP Rapid PCR Cleanup Kit (NEB #E1050)?

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]

Certificate Of Analysis

The Certificate of Analysis (COA) is a signed document that includes the storage temperature, expiration date and quality controls for an individual lot. The following file naming structure is used to name these document files: [Product Number]_[Size]_[Version]_[Lot Number]

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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