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Koren, E., Lev-Maor, G., & Ast, G. (2007). The Emergence of Alternative 3′ and 5′ Splice Site Exons from Constitutive Exons. PLoS Computational Biology, 3(5), e95.

Authors 3
  1. Eli Koren (first)
  2. Galit Lev-Maor (additional)
  3. Gil Ast (additional)
References 51 Referenced 65
  1. 10.1126/science.282.5396.2012 / Science / Genome sequence of the nematode C. elegans: A platform for investigating biology. by Consortium TCeS (1998)
  2. 10.1038/35057062 / Nature / Initial sequencing and analysis of the human genome. (2001)
  3. 10.1016/S0168-9525(00)02176-4 / Trends Genet / Alternative splicing: Increasing diversity in the proteomic world. (2001)
  4. 10.1016/S0955-0674(00)00212-X / Curr Opin Cell Biol / Pre-mRNA splicing in the new millennium. (2001)
  5. 10.1093/nar/gkl924 / Nucleic Acids Res / Different levels of alternative splicing among eukaryotes. (2007)
  6. {'key': 'pcbi-0030095-b006', 'first-page': '66', 'article-title': 'Transcriptome and genome conservation of alternative splicing events in humans and mice.', 'volume': '2004', 'year': '2004', 'journal-title': 'Pac Symp Biocomput'} / Pac Symp Biocomput / Transcriptome and genome conservation of alternative splicing events in humans and mice. (2004)
  7. 10.1146/annurev.biochem.72.121801.161720 / Annu Rev Biochem / Mechanisms of alternative pre-messenger RNA splicing. (2003)
  8. 10.1016/S0968-0004(00)01549-8 / Trends Biochem Sci / Exonic splicing enhancers: Mechanism of action, diversity and role in human genetic diseases. (2000)
  9. {'key': 'pcbi-0030095-b009', 'article-title': 'Single nucleotide polymorphism-based validation of exonic splicing enhancers.', 'volume': '2', 'year': '2004', 'journal-title': 'PLoS Biol'} / PLoS Biol / Single nucleotide polymorphism-based validation of exonic splicing enhancers. (2004)
  10. 10.1016/j.molcel.2006.05.008 / Mol Cell / Comparative analysis identifies exonic splicing regulatory sequences—The complex definition of enhancers and silencers. (2006)
  11. 10.1101/gad.1195304 / Genes Dev / Computational definition of sequence motifs governing constitutive exon splicing. (2004)
  12. 10.1093/nar/gki810 / Nucleic Acids Res / Distribution of SR protein exonic splicing enhancer motifs in human protein-coding genes. (2005)
  13. 10.1038/nrg1451 / Nat Rev Genet / How did alternative splicing evolve? (2004)
  14. 10.1038/nrg1896 / Nat Rev Genet / Alternative splicing and RNA selection pressure—Evolutionary consequences for eukaryotic genomes. (2006)
  15. 10.1261/rna.5123504 / Rna / Detection and evaluation of intron retention events in the human transcriptome. (2004)
  16. 10.1016/j.molcel.2006.05.018 / Mol Cell / General and specific functions of exonic splicing silencers in splicing control. (2006)
  17. 10.1101/gad.1048803 / Genes Dev / Pre-mRNA splicing and human disease. (2003)
  18. 10.1093/nar/gkg830 / Nucleic Acids Res / Intrinsic differences between authentic and cryptic 5′ splice sites. (2003)
  19. 10.1089/104454902320908450 / DNA Cell Biol / Defects in pre-mRNA processing as causes of and predisposition to diseases. (2002)
  20. 10.1093/nar/gkj408 / Nucleic Acids Res / Alternative splicing regulation at tandem 3′ splice sites. (2006)
  21. 10.1038/ng1469 / Nat Genet / Widespread occurrence of alternative splicing at NAGNAG acceptors contributes to proteome plasticity. (2004)
  22. 10.1186/gb-2006-7-7-r65 / Genome Biol / Phylogenetically widespread alternative splicing at unusual GYNGYN donors. (2006)
  23. {'key': 'pcbi-0030095-b023', 'article-title': 'A simple physical model predicts small exon length variations.', 'volume': '2', 'year': '2006', 'journal-title': 'PLoS Genet'} / PLoS Genet / A simple physical model predicts small exon length variations. (2006)
  24. 10.1261/rna.151106 / RNA / Genomic splice-site analysis reveals frequent alternative splicing close to the dominant splice site. (2006)
  25. 10.1016/j.gene.2005.07.015 / Gene / Characterization and prediction of alternative splice sites. (2006)
  26. 10.1093/nar/gkl900 / Nucleic Acids Res / Identification of alternative 5′/3′ splice sites based on the mechanism of splice site competition. (2006)
  27. 10.1101/gr.6902 / Genome Res / Discovery of regulatory elements by a computational method for phylogenetic footprinting. (2002)
  28. 10.1038/nature01262 / Nature / Initial sequencing and comparative analysis of the mouse genome. (2002)
  29. 10.1101/gr.2572604 / Genome Res / A non-EST–based method for exon-skipping prediction. (2004b)
  30. 10.1261/rna.5196404 / RNA / Comparative analysis detects dependencies among the 5′ splice-site positions. (2004)
  31. 10.1016/j.tig.2003.12.004 / Trends Genet / How prevalent is functional alternative splicing in the human genome? (2004a)
  32. 10.1093/hmg/11.4.451 / Hum Mol Genet / Categorization and characterization of transcript-confirmed constitutively and alternatively spliced introns and exons from human. (2002)
  33. 10.1016/S1097-2765(04)00181-9 / Mol Cell / Minimal conditions for exonization of intronic sequences: 5′ splice site formation in alu exons. (2004c)
  34. 10.1093/nar/22.9.1515 / Nucleic Acids Res / A sequence compilation and comparison of exons that are alternatively spliced in neurons. (1994)
  35. 10.1261/rna.2040605 / RNA / Determinants of the inherent strength of human 5′ splice sites. (2005)
  36. 10.1126/science.1073774 / Science / Predictive identification of exonic splicing enhancers in human genes. (2002)
  37. 10.1016/j.cell.2004.11.010 / Cell / Systematic identification and analysis of exonic splicing silencers. (2004)
  38. 10.1101/gr.200901 / Genome Res / The K(A)/K(S) ratio test for assessing the protein-coding potential of genomic regions: An empirical and simulation study. (2002)
  39. 10.1093/bioinformatics/bti613 / Bioinformatics / Assessing the application of Ka/Ks ratio test to alternatively spliced exons. (2005)
  40. 10.1101/gr.1208803 / Genome Res / Intronic sequences flanking alternatively spliced exons are conserved between human and mouse. (2003)
  41. {'key': 'pcbi-0030095-b041', 'article-title': 'Unusual intron conservation near tissue-regulated exons found by splicing microarrays.', 'volume': '2', 'year': '2006', 'journal-title': 'PLoS Comput Biol'} / PLoS Comput Biol / Unusual intron conservation near tissue-regulated exons found by splicing microarrays. (2006)
  42. 10.1093/nar/gkl706 / Nucleic Acids Res / Alu elements as regulators of gene expression. (2006)
  43. 10.1073/pnas.0508489102 / Proc Natl Acad Sci U S A / The architecture of pre-mRNAs affects mechanisms of splice-site pairing. (2005)
  44. 10.1016/j.tig.2005.06.009 / Trends Genet / Fixation of conserved sequences shapes human intron size and influences transposon-insertion dynamics. (2005)
  45. {'issue': 'Database issue', 'key': 'pcbi-0030095-b045', 'first-page': 'D173', 'article-title': 'Database resources of the National Center for Biotechnology Information.', 'volume': '34', 'year': '2006', 'journal-title': 'Nucleic Acids Res'} / Nucleic Acids Res / Database resources of the National Center for Biotechnology Information. (2006)
  46. 10.1093/nar/22.22.4673 / Nucleic Acids Res / CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. (1994)
  47. 10.1038/342243a0 / Nature / Scanning from an independently specified branch point defines the 3′ splice site of mammalian introns. (1989)
  48. 10.1038/46086 / Nature / The RNA splicing factor hSlu7 is required for correct 3′ splice-site choice. (1999)
  49. 10.1073/pnas.89.22.10706 / Proc Natl Acad Sci U S A / On “genomenclature”: A comprehensive (and respectful) taxonomy for pseudogenes and other “junk DNA.”. (1992)
  50. 10.1101/gr.8.9.967 / Genome Res / A computer program for aligning a cDNA sequence with a genomic DNA sequence. (1998)
  51. 10.1038/nrg929 / Nat Rev Genet / The origin and evolution of model organisms. (2002)
Dates
Type When
Created 18 years, 3 months ago (May 23, 2007, 1:19 p.m.)
Deposited 5 years, 4 months ago (May 6, 2020, 6:09 p.m.)
Indexed 3 months ago (June 2, 2025, 4:27 p.m.)
Issued 18 years, 3 months ago (May 25, 2007)
Published 18 years, 3 months ago (May 25, 2007)
Published Online 18 years, 3 months ago (May 25, 2007)
Funders 0

None

@article{Koren_2007, title={The Emergence of Alternative 3′ and 5′ Splice Site Exons from Constitutive Exons}, volume={3}, ISSN={1553-7358}, url={http://dx.doi.org/10.1371/journal.pcbi.0030095}, DOI={10.1371/journal.pcbi.0030095}, number={5}, journal={PLoS Computational Biology}, publisher={Public Library of Science (PLoS)}, author={Koren, Eli and Lev-Maor, Galit and Ast, Gil}, editor={Guigo, Roderic}, year={2007}, month=may, pages={e95} }