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3’ Untranslated region
(noun) /θriː praɪm ˌʌntrænsˈleɪtɪd ˈriːʤən/
The three prime untranslated region, most often referred to as the 3’ UTR, is a region belonging to a messenger RNA, which comes after the termination (STOP) codon. Its sequence and length are highly variable from gene to gene, yet it bears a few common motifs close to the polyadenylation site. The overall sequence being specific to each gene, 3’ UTR can be used to identify each gene, but also for other studies, such as the determination of alternative polyadenylation sites.
Applications
- Gene expression profiling
- Determination of alternative poly(A) sites (QuantSeq REV kit)
- RNA kinetics (in combination with Lexogen’s SLAMSeq kit )
- Targeted sequencing (with the additional QuantSeq-Flex modules)
- Polysome profiling
- Isoform and fusion discovery (QuantSeq-Flex)
QuantSeq – the technology in a nutshell
The patented QuantSeq technology targets the 3’ ends of mRNA molecules, for a quick and cost-effective gene expression analysis by RNA-Seq, as well as other more advanced applications.
QuantSeq comes in different versions:
- QuantSeq FWD V2 with UDI – for optimal sample multiplexing
- QuantSeq REV (Reverse) – for poly(A) site identification
- QuantSeq-Pool – for handling large numbers of samples
- QuantSeq-Flex – for customized approaches
Watch a short video to learn more about QuantSeq:
Benefits
QuantSeq is the gold-standard solution for gene expression studies targeting the 3’ end of RNA transcripts. You can work with very low inputs, degraded samples, or blood – QuantSeq will be your companion of choice during your RNA-Seq journey! Please see additional benefits by clicking on each revolving icon below.
Cost-efficient
Compatible with degraded samples
Scalable for high throughput
Best-in-class demultiplexing
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QuantSeq selection table (NEW! Includes QuantSeq with UDI V2 kits)
Table 1 | QuantSeq selection table.
Feature | Specification | Benefit | ||||||||
---|---|---|---|---|---|---|---|---|---|---|
QuantSeq Forward (FWD) | NEW! QuantSeq with UDI V2 | QuantSeq Reverse (REV) | QuantSeq-Pool | QuantSeq-Flex V2* | ||||||
Input RNA quantity | 1 ng – 500 ng | 1 ng – 500 ng | 1 ng – 500 ng | 10 ng – 120 ng | 1 ng – 500 ng | Flexible input range | ||||
RNA types | Total RNA | Total RNA | Total RNA | Total RNA | Total RNA | No need for poly(A) enrichment or rRNA depletion | ||||
RNA quality | all qualitites, including degraded RNA | all qualitites, including degraded RNA | all qualitites, including degraded RNA | RIN ≥ 5 | all qualitites, including degraded RNA | Handles most degraded samples (e.g., FFPE) | ||||
Workflow time | 4.5 hrs | 4.5 hrs | 4.5 hrs | 4.5 hrs | 4.5 hrs | Short protocol – libraries ready to be sequenced within the same day | ||||
Kit reaction sizes | 24, 96, and 384 | 24, 96, and 384 | 24 and 96 | 96 | 96 | Scalable for evaluation, adoption and high-throughput applications | ||||
Technology | direct polyA hybridisation, one strand per fragment | direct polyA hybridisation, one strand per fragment | same as QS FWD, with additional custom sequencing primer | same as QS FWD, with RT pooling and i1 indexing protocol | custom primer options on first and/or second-strand synthesis | Count your genes effortlessly, with streamlined multiplexing options | ||||
Unique Dual Indexing (UDI) | compatible(Add-on needed separately) | included | compatible(Add-on needed separately) | compatible(Add-on needed separately) | compatible(Add-on needed separately) | Take advantage of the best design in industry with Lexogen’s 12 nt UDI | ||||
Unique Molecular Identifiers (UMI) | compatible(Add-on needed separately) | compatible(Add-on needed separately) | compatible(Add-on needed separately) | included | compatible(Add-on needed separately) | For low input samples – easily identify PCR duplicates | ||||
Automation capability | All QuantSeq workflows can be automated on liquid handlers | All QuantSeq workflows can be automated on liquid handlers | All QuantSeq workflows can be automated on liquid handlers | All QuantSeq workflows can be automated on liquid handlers | All QuantSeq workflows can be automated on liquid handlers | Supports high-throughput applications | ||||
* The QuantSeq-Flex technology requires the purchase of a core kit (e.g., QuantSeq FWD, QuantSeq with UDI V2, QuantSeq-Pool) and a QuantSeq-Flex module.