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Genomic gems: SINE RNAs regulate mRNA production
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scholarly article
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Europe PubMed Central
title
Genomic gems: SINE RNAs regulate mRNA production
(English)
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author name string
Steven L Ponicsan
series ordinal
1
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Jennifer F Kugel
series ordinal
2
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James A Goodrich
series ordinal
3
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language of work or name
English
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publication date
April 2010
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published in
Current Opinion in Genetics & Development
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volume
20
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page(s)
149-55
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issue
2
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cites work
RNA-editing-mediated exon evolution
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Characterization of the structure, function, and mechanism of B2 RNA, an ncRNA repressor of RNA polymerase II transcription
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7 April 2017
Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome
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7 April 2017
Initial sequencing and analysis of the human genome
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Editing of glutamate receptor B subunit ion channel RNAs by four alternatively spliced DRADA2 double-stranded RNA adenosine deaminases
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7 April 2017
Cell stress and translational inhibitors transiently increase the abundance of mammalian SINE transcripts
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7 April 2017
Initial sequencing and comparative analysis of the mouse genome
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7 April 2017
Alternative splicing of Alu exons--two arms are better than one
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7 April 2017
Functional noncoding sequences derived from SINEs in the mammalian genome
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7 April 2017
A large family of ancient repeat elements in the human genome is under strong selection
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7 April 2017
Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors
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7 April 2017
Regulation of alternative splicing by RNA editing
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7 April 2017
Pre-mRNA processing reaches back to transcription and ahead to translation
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A distal enhancer and an ultraconserved exon are derived from a novel retroposon
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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7 April 2017
Systematic identification of abundant A-to-I editing sites in the human transcriptome
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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7 April 2017
Alu repeats and human disease
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7 April 2017
TFIIF facilitates dissociation of RNA polymerase II from noncoding RNAs that lack a repression domain
1 reference
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PubMed Central
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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B2 RNA and Alu RNA repress transcription by disrupting contacts between RNA polymerase II and promoter DNA within assembled complexes
1 reference
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Alu exonization events reveal features required for precise recognition of exons by the splicing machinery
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27 September 2017
Diverse splicing patterns of exonized Alu elements in human tissues
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PubMed Central
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27 September 2017
Intronic Alus influence alternative splicing
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PubMed Central
reference URL
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The take and give between retrotransposable elements and their hosts
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1 reference
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27 September 2017
Alu element-mediated gene silencing
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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
Multifactorial interplay controls the splicing profile of Alu-derived exons
1 reference
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PubMed Central
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27 September 2017
Human Alu RNA is a modular transacting repressor of mRNA transcription during heat shock
1 reference
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PubMed Central
reference URL
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27 September 2017
Comparative analysis of transposed element insertion within human and mouse genomes reveals Alu's unique role in shaping the human transcriptome.
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1 reference
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Non-coding-RNA regulators of RNA polymerase II transcription
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
Short retroposons in eukaryotic genomes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
Widespread RNA editing of embedded alu elements in the human transcriptome
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
B2 RNA binds directly to RNA polymerase II to repress transcript synthesis
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
How prevalent is functional alternative splicing in the human genome?
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
AluGene: a database of Alu elements incorporated within protein-coding genes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
A slow RNA polymerase II affects alternative splicing in vivo
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
The birth of an alternatively spliced exon: 3' splice-site selection in Alu exons
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
Alu-containing exons are alternatively spliced
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
Transcriptional activation of short interspersed elements by DNA-damaging agents
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
Cis-acting influences on Alu RNA levels
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
Functions and mechanisms of RNA editing
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
Physiological stresses increase mouse short interspersed element (SINE) RNA expression in vivo
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
Silk worm Bm1 SINE RNA increases following cellular insults
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
Does SINE evolution preclude Alu function?
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
Determination of the phylogenetic relationships among Pacific salmonids by using short interspersed elements (SINEs) as temporal landmarks of evolution.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
Repeat sequence families derived from mammalian tRNA genes
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
Induction of specific transcription by RNA polymerase III in transformed cells
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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27 September 2017
The subset of mouse B1 (Alu-equivalent) sequences expressed as small processed cytoplasmic transcripts
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
27 September 2017
A swine SINE (PRE-1 sequence) distribution in swine-related animal species and its phylogenetic analysis in swine genome.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
30 May 2018
Alu sequences in the coding regions of mRNA: a source of protein variability.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
30 May 2018
The herpes simplex virus immediate-early protein ICP27 stimulates the transcription of cellular Alu repeated sequences by increasing the activity of transcription factor TFIIIC
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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30 May 2018
Beyond DNA: RNA editing and steps toward Alu exonization in primates
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
28 November 2018
Developmentally regulated activation of a SINE B2 repeat as a domain boundary in organogenesis
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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28 November 2018
Bov-tA short interspersed nucleotide element sequences in circulating nucleic acids from sera of cattle with bovine spongiform encephalopathy (BSE) and sera of cattle exposed to BSE.
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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28 November 2018
The SINE-encoded mouse B2 RNA represses mRNA transcription in response to heat shock
1 reference
stated in
PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
retrieved
28 November 2018
Alu repeat analysis in the complete human genome: trends and variations with respect to genomic composition.
1 reference
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PubMed Central
reference URL
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2859989
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28 November 2018
Transposable B2 SINE elements can provide mobile RNA polymerase II promoters
1 reference
stated in
PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/20176473
retrieved
12 December 2020
based on heuristic
inferred from PubMed ID database lookup
Alu RNA secondary structure consists of two independent 7 SL RNA-like folding units
1 reference
stated in
PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/20176473
retrieved
12 December 2020
based on heuristic
inferred from PubMed ID database lookup
Genetic relationships among hippopotamus, whales, and bovine based on SINE insertion analysis
1 reference
stated in
PubMed
reference URL
https://pubmed.ncbi.nlm.nih.gov/20176473
retrieved
12 December 2020
based on heuristic
inferred from PubMed ID database lookup
Identifiers
DOI
10.1016/J.GDE.2010.01.004
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PMCID
2859989
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PubMed ID
20176473
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ResearchGate publication ID
41531883
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