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Related Concept Videos

RNA Structure01:23

RNA Structure

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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...
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RNA Structure01:19

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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.
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Nucleic Acid Structure01:25

Nucleic Acid Structure

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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
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RNA-seq03:21

RNA-seq

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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. 
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RNA Splicing01:32

RNA Splicing

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Splicing is the process by which eukaryotic RNA is edited before its translation into protein. The RNA strand transcribed from eukaryotic DNA is called the primary transcript. The primary transcripts that become mRNAs are called precursor messenger RNAs (pre-mRNAs). Eukaryotic pre-mRNA contains alternating sequences of exons and introns. Exons are nucleotide sequences that code for proteins, whereas introns are the non-coding regions. In RNA splicing, introns are removed and exons are bonded...
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Genome Annotation and Assembly03:36

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The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
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Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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Multiple 3D RNA Structure Superposition Using Neighbor Joining.

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    IEEE/ACM Transactions on Computational Biology and Bioinformatics
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    This summary is machine-generated.

    MultiSETTER extends RNA structure alignment methods for analyzing multiple RNA sequences. This bioinformatics tool aids in classifying and comparing RNA structures, advancing RNA research.

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    Area of Science:

    • Bioinformatics
    • Computational Biology
    • Molecular Biology

    Background:

    • Advances in RNA research necessitate efficient bioinformatics tools for handling complex RNA structural data.
    • Existing methods for RNA structure alignment are limited, particularly for multiple structures.

    Purpose of the Study:

    • To introduce MultiSETTER, an extension of the SETTER method for multiple RNA structure alignment.
    • To evaluate the accuracy and utility of MultiSETTER in classifying and comparing RNA structures.

    Main Methods:

    • MultiSETTER decomposes RNA structures into non-overlapping subunits.
    • It integrates these subunits with the ClustalW multiple sequence alignment algorithm, adapted for structural alignment.
    • Accuracy was assessed via automatic RNA structure classification and comparison with SCOR annotations.

    Main Results:

    • MultiSETTER provides a novel approach for multiple RNA structure alignment.
    • Its classification accuracy was validated against established methods like LocARNA and RNADistance.
    • The study demonstrates MultiSETTER's effectiveness in handling and analyzing multiple RNA structural datasets.

    Conclusions:

    • MultiSETTER is a valuable bioinformatics tool for multiple RNA structure alignment and classification.
    • It enhances the analysis of RNA structural data, supporting advancements in RNA research.
    • The software is freely available, promoting wider adoption and further development.