Factors affecting splicing strength of yeast genes (Q39455987)

12 September 2017

Factors affecting splicing strength of yeast genes (English)

1 reference

12 September 2017

Xuhua Xia

2

0 references

author name string

Pinchao Ma

series ordinal

1

1 reference

12 September 2017

20 November 2011

1 reference

Comparative and Functional Genomics

12 September 2017

1 reference

12 September 2017

2011

1 reference

12 September 2017

212146

1 reference

Creative Commons Attribution 3.0 Unported

12 September 2017

start time

1 January 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

cites work

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Exon sequences at the splice junctions affect splicing fidelity and alternative splicing

12 September 2017

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12 September 2017

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Deletion of many yeast introns reveals a minority of genes that require splicing for function.

12 September 2017

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Large-scale comparative analysis of splicing signals and their corresponding splicing factors in eukaryotes

12 September 2017

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Functional and evolutionary analysis of alternatively spliced genes is consistent with an early eukaryotic origin of alternative splicing

12 September 2017

1 reference

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Rapid, transcript-specific changes in splicing in response to environmental stress

12 September 2017

1 reference

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A conditional role of U2AF in splicing of introns with unconventional polypyrimidine tracts

12 September 2017

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Interactions between Mei4, Rec114, and other proteins required for meiotic DNA double-strand break formation in Saccharomyces cerevisiae

12 September 2017

1 reference

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Transcript specificity in yeast pre-mRNA splicing revealed by mutations in core spliceosomal components

12 September 2017

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

12 September 2017

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Compensatory relationship between splice sites and exonic splicing signals depending on the length of vertebrate introns

12 September 2017

1 reference

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A large-scale full-length cDNA analysis to explore the budding yeast transcriptome

12 September 2017

1 reference

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Comprehensive splice-site analysis using comparative genomics

12 September 2017

1 reference

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RS domains contact splicing signals and promote splicing by a common mechanism in yeast through humans

12 September 2017

1 reference

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Characteristics and regulatory elements defining constitutive splicing and different modes of alternative splicing in human and mouse

12 September 2017

1 reference

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Extended base pair complementarity between U1 snRNA and the 5' splice site does not inhibit splicing in higher eukaryotes, but rather increases 5' splice site recognition

12 September 2017

1 reference

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How did alternative splicing evolve?

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Introns and splicing elements of five diverse fungi

12 September 2017

1 reference

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Saccharomyces genome database: underlying principles and organisation

12 September 2017

1 reference

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The splicing factor U2AF small subunit is functionally conserved between fission yeast and humans

12 September 2017

1 reference

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Global analysis of protein expression in yeast

12 September 2017

1 reference

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Support for a meiotic recombination initiation complex: interactions among Rec102p, Rec104p, and Spo11p

12 September 2017

1 reference

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Pre-mRNA splicing: awash in a sea of proteins

12 September 2017

1 reference

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Finding Functional Features in Saccharomyces Genomes by Phylogenetic Footprinting

12 September 2017

1 reference

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Sequencing and comparison of yeast species to identify genes and regulatory elements

12 September 2017

1 reference

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The U1 snRNP protein U1C recognizes the 5' splice site in the absence of base pairing

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The MER3 DNA helicase catalyzes the unwinding of holliday junctions

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Genomewide analysis of mRNA processing in yeast using splicing-specific microarrays

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Saccharomyces cerevisiae Mer3 is a DNA helicase involved in meiotic crossing over

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The Mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Defining a 5' splice site by functional selection in the presence and absence of U1 snRNA 5' end.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

DAMBE: software package for data analysis in molecular biology and evolution

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Quality control of mRNA function

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

A yeast intronic splicing enhancer and Nam8p are required for Mer1p-activated splicing.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

EMBOSS: the European Molecular Biology Open Software Suite

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The Saccharomyces cerevisiae MER3 gene, encoding a novel helicase-like protein, is required for crossover control in meiosis

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Identifying DNA and protein patterns with statistically significant alignments of multiple sequences

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Allele-specific genetic interactions between Prp8 and RNA active site residues suggest a function for Prp8 at the catalytic core of the spliceosome.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Stress signaling from the lumen of the endoplasmic reticulum: coordination of gene transcriptional and translational controls

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

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

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Evolutionary fates and origins of U12-type introns.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Dissecting the regulatory circuitry of a eukaryotic genome

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The meiosis-specific Hop2 protein of S. cerevisiae ensures synapsis between homologous chromosomes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

How Optimized Is the Translational Machinery in Escherichia coli, Salmonella typhimurium and Saccharomyces cerevisiae?

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Both the polypyrimidine tract and the 3' splice site function prior to the first step of splicing in fission yeast

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Endoplasmic Reticulum Stress-induced mRNA Splicing Permits Synthesis of Transcription Factor Hac1p/Ern4p That Activates the Unfolded Protein Response

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The Transmembrane Kinase Ire1p Is a Site-Specific Endonuclease That Initiates mRNA Splicing in the Unfolded Protein Response

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The unfolded protein response coordinates the production of endoplasmic reticulum protein and endoplasmic reticulum membrane

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Mutation of putative branchpoint consensus sequences in plant introns reduces splicing efficiency

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

tRNA ligase is required for regulated mRNA splicing in the unfolded protein response

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Mutational analysis of pre-mRNA splicing in Saccharomyces cerevisiae using a sensitive new reporter gene, CUP1

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The yeast MUD2 protein: an interaction with PRP11 defines a bridge between commitment complexes and U2 snRNP addition

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Yeast pre-messenger RNA splicing efficiency depends on critical spacing requirements between the branch point and 3' splice site

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Splicing of messenger RNA precursors

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Sequence logos: a new way to display consensus sequences

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Isolation of mutants defective in early steps of meiotic recombination in the yeast Saccharomyces cerevisiae

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The rec102 mutant of yeast is defective in meiotic recombination and chromosome synapsis

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

A reappraisal of non-consensus mRNA splice sites

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Test of intron predictions reveals novel splice sites, alternatively spliced mRNAs and new introns in meiotically regulated genes of yeast

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Mer1p is a modular splicing factor whose function depends on the conserved U2 snRNP protein Snu17p.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Identification of proteins that interact with exon sequences, splice sites, and the branchpoint sequence during each stage of spliceosome assembly

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Split genes and RNA splicing

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Characterization of a U2AF-independent commitment complex (E') in the mammalian spliceosome assembly pathway

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

An improved implementation of codon adaptation index

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

A subset of Mer1p-dependent introns requires Bud13p for splicing activation and nuclear retention

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Mutational analysis of a plant branchpoint and polypyrimidine tract required for constitutive splicing of a mini-exon

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Classification of Introns: U2-Type or U12-Type

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The role of branchpoint-3' splice site spacing and interaction between intron terminal nucleotides in 3' splice site selection in Saccharomyces cerevisiae

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

A U-rich tract enhances usage of an alternative 3′ splice site in yeast

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Translational attenuation mediated by an mRNA intron

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Mutations in U6 snRNA that alter splice site specificity: implications for the active site

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Spliceosome assembly in yeast: one ChIP at a time?

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The discovery of split genes and RNA splicing.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Saccharomyces cerevisiae Mer3 helicase stimulates 3'-5' heteroduplex extension by Rad51; implications for crossover control in meiotic recombination

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Gene expression analyzed by high-resolution state array analysis and quantitative proteomics: response of yeast to mating pheromone

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Surveying Saccharomyces genomes to identify functional elements by comparative DNA sequence analysis

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Relationship of codon bias to mRNA concentration and protein length in Saccharomyces cerevisiae

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Transcription and proper splicing of a mammalian gene in yeast

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

A handful of intron-containing genes produces the lion's share of yeast mRNA.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Displaying the information contents of structural RNA alignments: the structure logos.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

Requirement for SLU7 in yeast pre-mRNA splicing is dictated by the distance between the branchpoint and the 3' splice site.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3226532

The control of the false discovery rate in multiple testing under dependency

21 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1155/2011/212146

The U5 and U6 small nuclear RNAs as active site components of the spliceosome

21 January 2018

1 reference

12 December 2020

Unconventional splicing of HAC1/ERN4 mRNA required for the unfolded protein response. Sequence-specific and non-sequential cleavage of the splice sites

1 reference

12 December 2020

Involvement of the MRE2 gene of yeast in formation of meiosis-specific double-strand breaks and crossover recombination through RNA splicing

1 reference

12 December 2020

The role of the mammalian branchpoint sequence in pre-mRNA splicing

1 reference

12 December 2020

Differential recruitment of the splicing machinery during transcription predicts genome-wide patterns of mRNA splicing

1 reference

12 December 2020

Identifiers

DOI

10.1155/2011/212146

1 reference

release_5fc5z7dlobextcycwfmrjlj7vy

12 September 2017

0 references

PMC publication ID

3226532

1 reference

PMC publication ID

3226532

12 September 2017

PubMed publication ID

22162666

1 reference

PMC publication ID

3226532