Pre-mRNA splicing is facilitated by an optimal RNA polymerase II elongation rate. (Q34590283)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25452276 AND SRC:MED&resulttype=core&format=json

23 February 2020

title

Pre-mRNA splicing is facilitated by an optimal RNA polymerase II elongation rate (English)

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23 February 2020

3

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23 February 2020

David L Bentley

10

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23 February 2020

author name string

Nova Fong

1

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23 February 2020

Hyunmin Kim

2

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23 February 2020

Xiong Ji

4

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23 February 2020

Jinsong Qiu

5

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23 February 2020

Tassa Saldi

6

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23 February 2020

Katrina Diener

7

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23 February 2020

Ken Jones

8

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23 February 2020

Xiang-Dong Fu

9

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23 February 2020

publication date

1 December 2014

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23 February 2020

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23 February 2020

volume

28

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23 February 2020

issue

23

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23 February 2020

page(s)

2663-2676

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describes a project that uses

23 February 2020

ImageQuant

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC4248296/fullTextXML

inferred from PubMed Central ID database lookup

cites work

Genome-wide dynamics of Pol II elongation and its interplay with promoter proximal pausing, chromatin, and exons

1 reference

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Rate of elongation by RNA polymerase II is associated with specific gene features and epigenetic modifications

7 July 2018

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Coupling mRNA processing with transcription in time and space.

7 July 2018

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Counting on co-transcriptional splicing

7 July 2018

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Signaling pathways differentially affect RNA polymerase II initiation, pausing, and elongation rate in cells

7 July 2018

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A complex network of factors with overlapping affinities represses splicing through intronic elements

7 July 2018

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Introns in UTRs: why we should stop ignoring them

7 July 2018

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Cotranscriptional splicing efficiency differs dramatically between Drosophila and mouse

7 July 2018

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Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules

7 July 2018

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Transcriptional elongation and alternative splicing

7 July 2018

1 reference

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Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs

7 July 2018

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Transcript dynamics of proinflammatory genes revealed by sequence analysis of subcellular RNA fractions

7 July 2018

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The Akt-SRPK-SR axis constitutes a major pathway in transducing EGF signaling to regulate alternative splicing in the nucleus

7 July 2018

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Integrative genome-wide analysis reveals cooperative regulation of alternative splicing by hnRNP proteins

7 July 2018

1 reference

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RASL-seq for massively parallel and quantitative analysis of gene expression

7 July 2018

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Genome-Wide Determination of a Broad ESRP-Regulated Posttranscriptional Network by High-Throughput Sequencing

7 July 2018

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MATS: a Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data

7 July 2018

1 reference

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Nascent-seq indicates widespread cotranscriptional pre-mRNA splicing in Drosophila

7 July 2018

1 reference

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SpliceDisease database: linking RNA splicing and disease

7 July 2018

1 reference

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Splicing programs and cancer

7 July 2018

1 reference

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Quantitative evaluation of all hexamers as exonic splicing elements

7 July 2018

1 reference

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Pre-mRNA splicing: where and when in the nucleus

7 July 2018

1 reference

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The super elongation complex (SEC) and MLL in development and disease

7 July 2018

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Global impact of RNA polymerase II elongation inhibition on alternative splicing regulation

7 July 2018

1 reference

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Intron retention facilitates splice variant diversity in calcium-activated big potassium channel populations

7 July 2018

1 reference

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Alternative pre-mRNA splicing regulation in cancer: pathways and programs unhinged

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

CELF proteins regulate CFTR pre-mRNA splicing: essential role of the divergent domain of ETR-3.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

c-Myc regulates transcriptional pause release

7 July 2018

1 reference

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Evidence that transcript cleavage is essential for RNA polymerase II transcription and cell viability

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Functional selection and systematic analysis of intronic splicing elements identify active sequence motifs and associated splicing factors

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Expansion of the eukaryotic proteome by alternative splicing

7 July 2018

1 reference

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7 July 2018

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Rates of in situ transcription and splicing in large human genes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Co-transcriptional splicing of constitutive and alternative exons

7 July 2018

1 reference

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Cancer-associated regulation of alternative splicing

7 July 2018

1 reference

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Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters

7 July 2018

1 reference

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Alternative isoform regulation in human tissue transcriptomes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Transient reversal of RNA polymerase II active site closing controls fidelity of transcription elongation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

The RNA polymerase II trigger loop functions in substrate selection and is directly targeted by alpha-amanitin

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Regulation of alternative splicing: more than just the ABCs

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

The transcriptional cycle of HIV-1 in real-time and live cells.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Clustal W and Clustal X version 2.0

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Comparative analysis identifies exonic splicing regulatory sequences--The complex definition of enhancers and silencers

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

RNA folding during transcription

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Mutations in the Saccharomyces cerevisiae RPB1 gene conferring hypersensitivity to 6-azauracil

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Systematic identification and analysis of exonic splicing silencers.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Diffusion of nucleoside triphosphates and role of the entry site to the RNA polymerase II active center

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Influence of RNA secondary structure on the pre-mRNA splicing process

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Multiple links between transcription and splicing

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

RESCUE-ESE identifies candidate exonic splicing enhancers in vertebrate exons

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

A slow RNA polymerase II affects alternative splicing in vivo

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Predictive identification of exonic splicing enhancers in human genes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Capping, splicing, and 3' processing are independently stimulated by RNA polymerase II: different functions for different segments of the CTD

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

The RNA binding protein YB-1 binds A/C-rich exon enhancers and stimulates splicing of the CD44 alternative exon v4.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

In vivo degradation of RNA polymerase II largest subunit triggered by alpha-amanitin

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

RNA structural patterns and splicing: molecular basis for an RNA-based enhancer.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Use of the ‘Perceptron’ algorithm to distinguish translational initiation sites inE. coli

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Splice site selection, rate of splicing, and alternative splicing on nascent transcripts

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

How slow RNA polymerase II elongation favors alternative exon skipping.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

From structure to systems: high-resolution, quantitative genetic analysis of RNA polymerase II.

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Orchestrated intron retention regulates normal granulocyte differentiation.

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Concurrent splicing and transcription are not sufficient to enhance splicing efficiency

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Maximum entropy modeling of short sequence motifs with applications to RNA splicing signals

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

The intranuclear site of excision of each intron in Balbiani ring 3 pre-mRNA is influenced by the time remaining to transcription termination and different excision efficiencies for the various introns.

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4248296

Cotranscriptional splicing regulation: it's not just about speed

27 October 2018

1 reference

12 December 2020

Drosophila RNA polymerase II mutants that affect transcription elongation

1 reference

12 December 2020

Sequence requirements for splicing of higher eukaryotic nuclear pre-mRNA

1 reference

12 December 2020

Effects of RNA secondary structure on alternative splicing of Pre-mRNA: Is folding limited to a region behind the transcribing RNA polymerase?

1 reference

12 December 2020

Identifiers

DOI

10.1101/GAD.252106.114

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25452276 AND SRC:MED&resulttype=core&format=json

release_37ig3for3basvlqthrmoly2bda

23 February 2020

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/37ig3for3basvlqthrmoly2bda

24 November 2022

mapped directly with Wikidata item

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25452276 AND SRC:MED&resulttype=core&format=json

23 February 2020

PubMed publication ID

25452276

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25452276 AND SRC:MED&resulttype=core&format=json