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Related Concept Videos

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 Structure01:19

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...
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...
RNA-seq03:21

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
Ribosomal RNA Synthesis02:53

Ribosomal RNA Synthesis

Ribosome synthesis is a highly complex and coordinated process involving more than 200 assembly factors. The synthesis and processing of ribosomal components occurs not only in the nucleolus but also in the nucleoplasm and the cytoplasm of eukaryotic cells.
Ribosome biogenesis begins with the synthesis of 5S and 45S pre-rRNAs by distinct RNA polymerases. The primary transcripts are extensively processed and modified before they are bound and folded by ribosomal proteins and assembly factors,...

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Related Experiment Video

Updated: Jun 24, 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

Local RNA structure alignment with incomplete sequence.

Diana L Kolbe1, Sean R Eddy

  • 1HHMI Janelia Farm Research Campus, Ashburn, VA 20147, USA. kolbed@janelia.hhmi.org

Bioinformatics (Oxford, England)
|March 24, 2009
PubMed
Summary
This summary is machine-generated.

This study introduces trCYK, a new RNA structural alignment algorithm. It accurately aligns incomplete RNA sequences, improving analysis of metagenomic data.

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Last Updated: Jun 24, 2026

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

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Published on: December 9, 2022

RNA Secondary Structure Prediction Using High-throughput SHAPE
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Use of Alu Element Containing Minigenes to Analyze Circular RNAs

Published on: March 10, 2020

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Automated RNA structural alignment benefits from primary sequence and secondary structure information.
  • Current methods struggle with incomplete RNA sequences common in metagenomic data.

Purpose of the Study:

  • To develop a local RNA structural alignment algorithm for handling incomplete sequences.
  • To improve alignment accuracy and coverage for RNA fragments.

Main Methods:

  • Introduced the trCYK algorithm for local RNA structural alignment.
  • Utilized a model incorporating primary sequence conservation and secondary structure information.

Main Results:

  • The trCYK algorithm demonstrated improved alignment accuracy for incomplete RNA sequences.
  • Enhanced coverage of structural RNA fragments in simulated metagenomic datasets.

Conclusions:

  • trCYK effectively aligns and scores incomplete RNA sequences using structural information.
  • The algorithm enhances the analysis of metagenomic data containing RNA fragments.