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Related Concept Videos

RNA Splicing01:32

RNA Splicing

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...
Pre-mRNA Processing02:01

Pre-mRNA Processing

In eukaryotic cells, transcripts made by RNA polymerase are modified and processed before exiting the nucleus. Unprocessed RNA is called precursor mRNA or pre-mRNA to distinguish it from mature mRNA.
Once about 20-40 ribonucleotides have been joined together by RNA polymerase, a group of enzymes adds a “cap” to the 5’ end of the growing transcript. In this process, a 5’ phosphate is replaced by modified guanosine that has a methyl group attached to it (7-Methyl guanosine). This 5’ cap helps the...
RNA Splicing01:32

RNA Splicing

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...
Alternative RNA Splicing02:18

Alternative RNA Splicing

Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...
Pre-mRNA Processing: RNA Splicing01:32

Pre-mRNA Processing: RNA Splicing

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...
Alternative RNA Splicing02:18

Alternative RNA Splicing

Alternative RNA splicing is the regulated splicing of exons and introns to produce different mature mRNAs from a single pre-mRNA. Unlike in constitutive splicing where a single gene produces a single type of mRNA, alternative splicing allows an organism to produce multiple proteins from a single gene and plays an important role in protein diversity.
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...

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Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
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Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models

Published on: December 9, 2016

COL: a pipeline for identifying putatively functional back-splicing.

Zheng Li, Bandhan Sarker, Fengyu Zhao

    Biorxiv : the Preprint Server for Biology
    |November 28, 2023
    PubMed
    Summary
    This summary is machine-generated.

    Identifying functional circular RNAs (circRNAs) is challenging. A new computational pipeline, COL, efficiently predicts functional circRNAs using conserved splicing motifs and high back-splicing rates from a single sample.

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    Using RNA-sequencing to Detect Novel Splice Variants Related to Drug Resistance in In Vitro Cancer Models
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    Published on: December 9, 2016

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    08:35

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    Published on: June 24, 2021

    A Reporter Based Cellular Assay for Monitoring Splicing Efficiency
    08:53

    A Reporter Based Cellular Assay for Monitoring Splicing Efficiency

    Published on: September 15, 2021

    Area of Science:

    • Molecular Biology
    • Bioinformatics
    • Genomics

    Background:

    • Circular RNAs (circRNAs) are non-coding RNAs formed by back-splicing.
    • While most circRNAs are non-functional, a subset possesses biological roles.
    • Distinguishing functional circRNAs from non-functional ones is crucial but difficult due to limitations in current experimental and computational methods.

    Purpose of the Study:

    • To develop a novel computational method for identifying putatively functional circRNAs.
    • To address the limitations of low-throughput experimental techniques and unreliable computational approaches.

    Main Methods:

    • The study hypothesized that functional back-splicing events exhibit higher rates than expected, possess conserved splicing motifs, and show unusually high back-splicing levels.
    • These features were confirmed in conserved back-splicing events across human, macaque, and mouse.
    • A computational pipeline named COL was designed, integrating these three features to predict functional back-splicing.

    Main Results:

    • COL can predict functional back-splicing using a single biological sample, unlike methods requiring multiple samples.
    • COL demonstrates a lower false positive rate compared to methods relying solely on back-splicing levels.
    • The pipeline successfully identified putatively functional back-splicing events.

    Conclusions:

    • COL is an efficient and versatile computational tool for the rapid identification of potentially functional circRNAs.
    • The identified circRNAs are suitable for experimental validation.
    • COL is publicly available, facilitating further research in the field.