Synonyms
Definition
Alternative splicing describes the processes that allow the generation of different forms of mature mRNA (messenger RNA) from a single gene.
Introduction
Alternative Splicing
Splicing is a mechanism by which the transcribed exons of a gene are combined into mature mRNA transcripts. The process of generating different transcripts via distinct exon combinations is known as alternative splicing.
Alternative splicing has been shown to be present at the transcriptional level in almost all multi-exon genes (Wang et al. 2008), and these different mRNA products may be translated into different protein isoforms, potentially allowing for the generation of multiple proteins from a single coding gene. An extreme example of the diversity that alternative splicing can achieve is the Drosophila Dscam gene, which could in theory encode 38,016 distinct spliced variants, nearly three times the total number of genes in Drosophila (Black 2000).
The...
References
1000 Genomes Project Consortium (2012) An integrated map of genetic variation from 1,092 human genomes. Nature 491:56–65
Abascal F et al (2015) Alternatively spliced homologous exons have ancient origins and are highly expressed at the protein level. PLoS Comput Biol 11(6):e1004325
Bhuiyan SA et al (2018) Systematic evaluation of isoform function in literature reports of alternative splicing. BMC Genomics 19:637
Black DL (2000) Protein diversity from alternative splicing: a challenge for bioinformatics and post-genome biology. Cell 103(3):367–370
Blencowe BJ (2017) The relationship between alternative splicing and proteomic complexity. Trends Biochem Sci 42(6):407–408
Crawford JB, Patton JG (2006) Activation of alpha-tropomyosin exon 2 is regulated by the SR protein 9G8 and heterogeneous nuclear ribonucleoproteins H and F. Mol Cell Biol 26(23):8791–8802
Ezkurdia I et al (2012) Comparative proteomics reveals a significant bias toward alternative protein isoforms with conserved structure and function. Mol Biol Evol 29(9):2265–2283
Ezkurdia I et al (2015) Most highly expressed protein-coding genes have a single dominant isoform. J Proteome Res 14(4):1880–1887
Frankish A et al (2019) GENCODE reference annotation for the human and mouse genomes. Nucleic Acids Res 47(D1):D766–D773
Gstaiger M, Aebersold R (2009) Applying mass spectrometry-based proteomics to genetics, genomics and network biology. Nat Rev Genet 10:617
Hu Z et al (2015) Revealing missing human protein isoforms based on ab initio prediction, RNA-seq and proteomics. Sci Rep 5:10940
Inada T (2016) The ribosome as a platform for mRNA and nascent polypeptide quality control. Trends Biochem Sci. p. S0968-0004(16)30151-7
Kelemen O et al (2013) Function of alternative splicing. Gene 514:1–30
Keren H, Lev-Maor G, Ast G (2010) Alternative splicing and evolution: diversification, exon definition and function. Nat Rev Genet 11:345–355
Kondrashov FA, Koonin EV (2001) Origin of alternative splicing by tandem exon duplication. Hum Mol Genet 10:2661–2669
Lareau LF, Brenner SE (2015) Regulation of splicing factors by alternative splicing and NMD is conserved between kingdoms yet evolutionarily flexible. Mol Biol Evol 32(4):1072–1079
Liu T, Lin K (2015) The distribution pattern of genetic variation in the transcript isoforms of the alternatively spliced protein-coding genes in the human genome. Mol BioSyst 11:1378–1388
López-Bigas N et al (2005) Are splicing mutations the most frequent cause of hereditary disease? FEBS Lett 579(9):1900–1903
McIntyre LM et al (2006) Sex-specific expression of alternative transcripts in Drosophila. Genome Biol 7(8):R79
Pajares MJ et al (2007) Alternative splicing: an emerging topic in molecular and clinical oncology. Lancet Oncol 8(4):349–357
Punta M et al (2012) The Pfam protein families database. Nucleic Acids Res 40:D290–D301
Rodriguez JM et al (2018) APPRIS 2017: principal isoforms for multiple gene sets. Nucleic Acids Res 46(D1):D213–D217
Sammeth M, Foissac S, Guigó R (2008) A general definition and nomenclature for alternative splicing events. PLoS Comput Biol 4(8):e1000147
Tilgner H et al (2009) Nucleosome positioning as a determinant of exon recognition. Nat Struct Mol Biol 16(9):996–1001
Tress M et al (2008) Proteomics studies confirm the presence of alternative protein isoforms on a large scale. Genome Biol 9(11):R162
Tress ML, Abascal F, Valencia A (2017a) Alternative splicing may not be the key to proteome complexity. Trends Biochem Sci 42(2):98–110
Tress ML, Abascal F, Valencia A (2017b) Most alternative isoforms are not functionally important. Trends Biochem Sci 42(6):408–410
Ule J et al (2005) Nova regulates brain-specific splicing to shape the synapse. Nat Genet 37(8):844–852
Wang ET et al (2008) Alternative isoform regulation in human tissue transcriptomes. Nature 456(7221):470–476
Weatheritt RJ, Sterne-Weiler T, Blencowe BJ (2016) The ribosome-engaged landscape of alternative splicing. Nat Struct Mol Biol 23(12):1117–1123
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Section Editor information
Rights and permissions
Copyright information
© 2019 European Biophysical Societies' Association (EBSA)
About this entry
Cite this entry
Ezkurdia, I., Valencia, A., Tress, M.L. (2019). Alternative Splicing. In: Roberts, G., Watts, A. (eds) Encyclopedia of Biophysics. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-35943-9_427-1
Download citation
DOI: https://doi.org/10.1007/978-3-642-35943-9_427-1
Received:
Accepted:
Published:
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-35943-9
Online ISBN: 978-3-642-35943-9
eBook Packages: Springer Reference Biomedicine and Life SciencesReference Module Biomedical and Life Sciences