Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

RNA Structure

RNA Structure

Overview
The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA): messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three RNA types consist of a...

RNA Structure

RNA Structure

The basic structure of RNA consists of a string of ribonucleotides attached by phosphodiester bonds. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA) involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three...

Nucleic Acid Structure

Nucleic Acid Structure

The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA...

DNA Base Pairing

DNA Base Pairing

DNA Base Pairing

DNA Base Pairing

Erwin Chargaff’s rules on DNA equivalence paved the way for the discovery of base pairing in DNA. Chargaff’s rules state that in a double-stranded DNA molecule,

Base-pairing and DNA Repair

Base-pairing and DNA Repair

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

How Does Transcription-Associated Mutagenesis Shape tRNA Microevolution?

Genome biology and evolution·2026

Same author

Allelic Variation at tRNA Genes in Three Nematode Species Indicates Mutation Load Despite Strong Purifying Selection.

Genome biology and evolution·2026

Same author

How much is Transcription-associated Mutagenesis Driving tRNA Microevolution?

bioRxiv : the preprint server for biology·2025

Same author

sEBM: Scaling Event Based Models to Predict Disease Progression via Implicit Biomarker Selection and Clustering.

Information processing in medical imaging : proceedings of the ... conference·2024

Same author

Optimizations for Computing Relatedness in Biomedical Heterogeneous Information Networks: SemNet 2.0.

Big data and cognitive computing·2022

Same author

Markov Chain-Based Sampling for Exploring RNA Secondary Structure under the Nearest Neighbor Thermodynamic Model and Extended Applications.

Mathematical & computational applications·2022

Same journal

PepMCP: A Graph-Based Membrane Contact Probability Predictor for Membrane-Lytic Antimicrobial Peptides.

Bioinformatics (Oxford, England)·2026

Same journal

ARGscape: A modular, interactive tool for manipulation of spatiotemporal ancestral recombination graphs.

Bioinformatics (Oxford, England)·2026

Same journal

A-liner: linear alignment visualizer for genome comparisons.

Bioinformatics (Oxford, England)·2026

Same journal

Interacting Species Database (ISDB): Comprehensive Resource for Interspecies Interactions at the Molecular Level.

Bioinformatics (Oxford, England)·2026

Same journal

ReadChop: a high-performance demultiplexer for long-read sequencing data.

Bioinformatics (Oxford, England)·2026

Same journal

SegJointGene: joint cell segmentation and spatial gene prioritization by information entropy guided convolutional neural networks.

Bioinformatics (Oxford, England)·2026

See all related articles

Search research articles

Home
Rnastructviz: Graphical Base Pairing Analysis.

Home
Rnastructviz: Graphical Base Pairing Analysis.

Related Experiment Video

RNA Secondary Structure Prediction Using High-throughput SHAPE

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

RNAStructViz: graphical base pairing analysis.

Maxie Dion Schmidt¹, Anna Kirkpatrick¹, Christine Heitsch¹

¹School of Mathematics, Georgia Institute of Technology, Atlanta, GA 30332-0160, USA.

Bioinformatics (Oxford, England)

|April 6, 2021

View abstract on PubMed

Summary

This summary is machine-generated.

Researchers can now visually compare RNA secondary structures with a new graphical tool. This software aids in understanding structural variations for RNA sequences.

More Related Videos

Analyzing and Building Nucleic Acid Structures with 3DNA

Analyzing and Building Nucleic Acid Structures with 3DNA

Published on: April 26, 2013

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

Related Experiment Videos

RNA Secondary Structure Prediction Using High-throughput SHAPE

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

Analyzing and Building Nucleic Acid Structures with 3DNA

Analyzing and Building Nucleic Acid Structures with 3DNA

Published on: April 26, 2013

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

Area of Science:

Bioinformatics
Computational Biology
Molecular Biology

Background:

RNA secondary structure plays a crucial role in gene regulation and function.
Accurate prediction and visualization of RNA structures are essential for understanding RNA biology.
Existing tools may lack comprehensive features for comparative analysis of structural alternatives.

Purpose of the Study:

To introduce a novel graphical tool, RNAStructViz, for advanced RNA secondary structure analysis.
To enable visual comparison of multiple RNA base-pairing configurations for a single sequence.
To provide integrated visualization and data export functionalities for RNA researchers.

Main Methods:

Development of a graphical user interface (GUI) featuring a circular arc diagram layout.

Implementation of a tool to compare up to three base-pairing configurations simultaneously.

Integration of a CT-style file viewer and a radial layout substructure viewer.

Inclusion of a zoom selection tool for interactive exploration of linked views.

Addition of functionalities for numerical information computation and data/image export.

Main Results:

A user-friendly graphical tool for RNA secondary structure analysis has been developed.
The tool facilitates direct visual comparison of different RNA structural conformations.
Integrated viewers and export options enhance the utility for data analysis and presentation.

Conclusions:

RNAStructViz offers a powerful new approach for visualizing and comparing RNA secondary structures.
The tool assists researchers in identifying similarities and differences among structural alternatives.
This visualization tool is expected to advance the understanding of RNA sequence-structure relationships.