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Related Concept Videos

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...
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...
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...
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...
Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
Cis-regulatory Sequences02:02

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...

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Related Experiment Video

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Merging Absolute and Relative Quantitative PCR Data to Quantify STAT3 Splice Variant Transcripts
11:19

Merging Absolute and Relative Quantitative PCR Data to Quantify STAT3 Splice Variant Transcripts

Published on: October 9, 2016

A unique, consistent identifier for alternatively spliced transcript variants.

Alberto Riva1, Graziano Pesole

  • 1Department of Molecular Genetics and Microbiology and University of Florida Genetics Institute, University of Florida, Gainesville, Florida, USA. ariva@ufl.edu

Plos One
|October 30, 2009
PubMed
Summary
This summary is machine-generated.

We developed isoform signatures, a new method to uniquely identify gene splice variants. This system provides a standardized way to reference and compare alternatively spliced isoforms across different research sources.

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Merging Absolute and Relative Quantitative PCR Data to Quantify STAT3 Splice Variant Transcripts
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Published on: October 9, 2016

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Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • Alternative splicing is crucial for gene expression in higher organisms.
  • Existing transcript identifiers are inadequate for alternatively spliced isoforms.
  • A standardized identifier is needed for unambiguous referencing and comparison.

Purpose of the Study:

  • To propose a novel algorithm for generating unique identifiers for alternatively spliced isoforms.
  • To establish a consistent nomenclature for alternative splicing.

Main Methods:

  • Developed an algorithm to compute an "isoform signature" based on exon-intron arrangement.
  • The signature uniquely identifies transcript structures.
  • Created a web-based resource for generating and searching isoform signatures.

Main Results:

  • Isoform signatures provide a unique identifier for transcript structures.
  • The signatures can be used as database keys for alternatively spliced isoforms.
  • The system facilitates comparison of alternative splicing predictions from different methods.

Conclusions:

  • Isoform signatures are simple, flexible, and unambiguous.
  • They can represent complex isoform structures, including coding sequence position and transcription start/end sites.
  • Adoption of isoform signatures will promote consistent nomenclature in alternative splicing research.