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Related Concept Videos

RNA Structure01:19

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...
RNA Structure01:23

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 Structure01:23

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...
Nucleic Acid Structure01:25

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 has a double-helix structure. The...
Nucleic acids02:43

Nucleic acids

Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes, the...
Nucleic Acids02:43

Nucleic Acids

Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes, the...

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Related Experiment Video

Updated: Jun 1, 2026

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
10:34

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

Published on: December 9, 2022

RNASAlign: RNA structural alignment system.

Thomas K F Wong1, Kwok-Lung Wan, Bay-Yuan Hsu

  • 1Department of Computer Science, The University of Hong Kong, Pokfulam Road, Hong Kong.

Bioinformatics (Oxford, England)
|June 11, 2011
PubMed
Summary
This summary is machine-generated.

RNASAlign is a new web server that performs structural alignment of RNA, even with complex pseudoknots. It automatically identifies pseudoknot types, aiding in the discovery of novel non-coding RNAs (ncRNAs).

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Last Updated: Jun 1, 2026

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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Published on: December 9, 2022

Analyzing and Building Nucleic Acid Structures with 3DNA
16:24

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RNA Secondary Structure Prediction Using High-throughput SHAPE
13:42

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

Area of Science:

  • Computational biology
  • Bioinformatics
  • RNA structure analysis

Background:

  • Structural alignment of RNA is crucial for identifying non-coding RNAs (ncRNAs).
  • Existing tools struggle with RNA structures containing pseudoknots.
  • Manual identification of pseudoknot types limits the application of structural alignment for novel ncRNA discovery.

Purpose of the Study:

  • To develop the first web server, RNASAlign, for automated RNA structural alignment.
  • To enable identification of pseudoknot types within RNA secondary structures.
  • To facilitate the discovery of novel ncRNAs through improved structural alignment.

Main Methods:

  • Implementation of the RNASAlign web server.
  • Automated identification of pseudoknot types in RNA secondary structures.
  • Structural alignment of folded RNA against all regions of a target DNA/RNA sequence.

Main Results:

  • RNASAlign successfully identifies pseudoknot types and performs structural alignment.
  • High similarity scores and low e-values highlight relevant alignments.
  • Experiments on over 350 ncRNA families demonstrate RNASAlign's effectiveness.

Conclusions:

  • RNASAlign overcomes limitations of existing tools by handling pseudoknots.
  • The web server automates a complex process, making structural alignment more accessible.
  • RNASAlign is a valuable tool for identifying novel ncRNAs.