Literature DB >> 10592188

YIDB: the Yeast Intron DataBase.

P J Lopez1, B Séraphin.   

Abstract

The Yeast Intron DataBase (YIDB) contains currently available information about all introns encoded in the nuclear and mitochondrial genomes of the yeast Saccharomyces cerevisiae. Introns are divided according to their mechanism of excision: group I and group II introns, pre-mRNA introns, tRNA introns and the HAC1 intron. Information about the host genome, the type of RNA in which they are inserted and their primary structure are provided together with references. For nuclear pre-mRNA introns, transcription frequencies, as determined by microarray experiments, have also been included. This updated database is accessible at: http://www.embl-heidelberg. de/ExternalInfo/seraphin/yidb.html

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Year:  2000        PMID： 10592188      PMCID： PMC102386          DOI： 10.1093/nar/28.1.85

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  8 in total

1.  Genomic-scale quantitative analysis of yeast pre-mRNA splicing: implications for splice-site recognition.

Authors:  P J Lopez; B Séraphin
Journal:  RNA       Date:  1999-09       Impact factor: 4.942

2.  Modelling of the three-dimensional architecture of group I catalytic introns based on comparative sequence analysis.

Authors:  F Michel; E Westhof
Journal:  J Mol Biol       Date:  1990-12-05       Impact factor: 5.469

3.  Dissecting the regulatory circuitry of a eukaryotic genome.

Authors:  F C Holstege; E G Jennings; J J Wyrick; T I Lee; C J Hengartner; M R Green; T R Golub; E S Lander; R A Young
Journal:  Cell       Date:  1998-11-25       Impact factor: 41.582

Review 4.  tRNA splicing.

Authors:  J Abelson; C R Trotta; H Li
Journal:  J Biol Chem       Date:  1998-05-22       Impact factor: 5.157

5.  Mechanism of non-spliceosomal mRNA splicing in the unfolded protein response pathway.

Authors:  T N Gonzalez; C Sidrauski; S Dörfler; P Walter
Journal:  EMBO J       Date:  1999-06-01       Impact factor: 11.598

Review 6.  Structure and activities of group II introns.

Authors:  F Michel; J L Ferat
Journal:  Annu Rev Biochem       Date:  1995       Impact factor: 23.643

Review 7.  Introns as mobile genetic elements.

Authors:  A M Lambowitz; M Belfort
Journal:  Annu Rev Biochem       Date:  1993       Impact factor: 23.643

8.  Genome-wide bioinformatic and molecular analysis of introns in Saccharomyces cerevisiae.

Authors:  M Spingola; L Grate; D Haussler; M Ares
Journal:  RNA       Date:  1999-02       Impact factor: 4.942
  8 in total
  19 in total

1.  Xpro: database of eukaryotic protein-encoding genes.

Authors:  Vivek Gopalan; Tin Wee Tan; Bernett T K Lee; Shoba Ranganathan
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

2.  Cotranscriptional recruitment of the U1 snRNP to intron-containing genes in yeast.

Authors:  Kimberly M Kotovic; Daniel Lockshon; Lamia Boric; Karla M Neugebauer
Journal:  Mol Cell Biol       Date:  2003-08       Impact factor: 4.272

3.  RNA splicing and debranching viewed through analysis of RNA lariats.

Authors:  Zhi Cheng; Thomas M Menees
Journal:  Mol Genet Genomics       Date:  2011-11-08       Impact factor: 3.291

4.  A 3' UTR sequence stabilizes termination codons in the unspliced RNA of Rous sarcoma virus.

Authors:  Jason E Weil; Karen L Beemon
Journal:  RNA       Date:  2005-11-21       Impact factor: 4.942

5.  Introns regulate RNA and protein abundance in yeast.

Authors:  Kara Juneau; Molly Miranda; Maureen E Hillenmeyer; Corey Nislow; Ronald W Davis
Journal:  Genetics       Date:  2006-07-02       Impact factor: 4.562

6.  Crystal structure of the Entamoeba histolytica RNA lariat debranching enzyme EhDbr1 reveals a catalytic Zn2+ /Mn2+ heterobinucleation.

Authors:  Elizabeth Ransey; Eduardo Paredes; Sourav K Dey; Subha R Das; Annie Heroux; Mark R Macbeth
Journal:  FEBS Lett       Date:  2017-06-14       Impact factor: 4.124

7.  Isolation and identification of short nucleotide sequences that affect translation initiation in Saccharomyces cerevisiae.

Authors:  Wei Zhou; Gerald M Edelman; Vincent P Mauro
Journal:  Proc Natl Acad Sci U S A       Date:  2003-04-04       Impact factor: 11.205

8.  High-density yeast-tiling array reveals previously undiscovered introns and extensive regulation of meiotic splicing.

Authors:  Kara Juneau; Curtis Palm; Molly Miranda; Ronald W Davis
Journal:  Proc Natl Acad Sci U S A       Date:  2007-01-23       Impact factor: 11.205

9.  Interaction of yeast eIF4G with spliceosome components: implications in pre-mRNA processing events.

Authors:  Panagiota Kafasla; J David Barrass; Elizabeth Thompson; Micheline Fromont-Racine; Alain Jacquier; Jean D Beggs; Joe Lewis
Journal:  RNA Biol       Date:  2009-11-18       Impact factor: 4.652

10.  Comparative analysis detects dependencies among the 5' splice-site positions.

Authors:  Ido Carmel; Saar Tal; Ida Vig; Gil Ast
Journal:  RNA       Date:  2004-05       Impact factor: 4.942
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