Exon repetition in mRNA

Frantz, Simon; Thiara, Amrik S.; Lodwick, David; Ng, Leong L.; Eperon, Ian C.; Samani, Nilesh J.

doi:10.1073/pnas.96.10.5400

Cited by 52 publications

(43 citation statements)

References 35 publications

(47 reference statements)

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“…In mammalian cells, trans-splicing has been described mostly as a way to duplicate exons, and often occurs at a low frequency (Chapdelaine and Bonen 1991;Eul et al 1995;Akopian et al 1999;Frantz et al 1999;Chatterjee and Fisher 2000;Takahara et al 2000). Our present findings show that trans-splicing between two distinct Pcdh gene clusters does generate a novel set of chimeric transcripts but at a low frequency.…”

Section: Dna Recombination In the Nervous System?mentioning

confidence: 51%

Molecular mechanisms governing Pcdh-γ gene expression: Evidence for a multiple promoter and cis-alternative splicing model

Wang¹,

Su²,

Bradley³

2002

Genes Dev.

178

214

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The genomic architecture of protocadherin (Pcdh) gene clusters is remarkably similar to that of the immunoglobulin and T cell receptor gene clusters, and can potentially provide significant molecular diversity. Pcdh genes are abundantly expressed in the central nervous system. These molecules are primary candidates for establishing specific neuronal connectivity. Despite the extensive analyses of the genomic structure of both human and mouse Pcdh gene clusters, the definitive molecular mechanisms that control Pcdh gene expression are still unknown. Four theories have been proposed, including (1) DNA recombination followed by cis-splicing, (2) single promoter and cis-alternative splicing, (3) multiple promoters and cis-alternative splicing, and (4) multiple promoters and trans-splicing. Using a combination of molecular and genetic analyses, we evaluated the four models at the Pcdh-␥ locus. Our analysis provides evidence that the transcription of individual Pcdh-␥ genes is under the control of a distinct but related promoter upstream of each Pcdh-␥ variable exon, and posttranscriptional processing of each Pcdh-␥ transcript is predominantly mediated through cis-alternative splicing.

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Section: Dna Recombination In the Nervous System?mentioning

confidence: 51%

Molecular mechanisms governing Pcdh-γ gene expression: Evidence for a multiple promoter and cis-alternative splicing model

Wang¹,

Su²,

Bradley³

2002

Genes Dev.

178

214

View full text Add to dashboard Cite

show abstract

“…Exon repetition and gene fusion events have been reported to be present in normal cell lines as a result of trans-splicing rather than of de novo genomic rearrangements (12,13). Thus, for those chimeras that were verified at the cDNA level we carried validation further to the genomic level, using a combination of long-range PCR (LR-PCR) and FISH experiments.…”

Section: Resultsmentioning

confidence: 99%

Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line

Zhao

Caballero

Lévy

et al. 2009

Proc. Natl. Acad. Sci. U.S.A.

107

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We have identified new genomic alterations in the breast cancer cell line HCC1954, using high-throughput transcriptome sequencing. With 120 Mb of cDNA sequences, we were able to identify genomic rearrangement events leading to fusions or truncations of genes including MRE11 and NSD1, genes already implicated in oncogenesis, and 7 rearrangements involving other additional genes. This approach demonstrates that high-throughput transcriptome sequencing is an effective strategy for the characterization of genomic rearrangements in cancers.cancer genome ͉ transcriptome sequencing

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“…These trans-splicings occur between different pre-mRNAs. On the other hand, very recent studies unveiled trans-splicing between identical pre-mRNAs, namely homotypic trans-splicing, in mammalian cells in the expressions of the rat carnitine octanoyltransferase gene (26), the rat SA gene (27), and the rat voltage-gated sodium channel gene (28). Our present finding with the human Sp1 gene adds another distinct example to the homotypic transsplicing in mammalian cells, suggesting this type of transsplicing might be rather a general mechanism for regulation of phenotype expression in mammalian cells.…”

Section: Discussionmentioning

confidence: 99%

Heterogeneous Sp1 mRNAs in Human HepG2 Cells Include a Product of Homotypic trans-Splicing

Takahara

Kanazu

Yanagisawa

et al. 2000

Journal of Biological Chemistry

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Sp1 is one of the well documented transcription factors, but the whole structure of human Sp1 has not been determined yet. In the present study, we isolated several cDNAs representing two forms of human Sp1 mRNA with different 5-terminal structures in HepG2 cells. Isolation of a genomic clone established that one of the cDNAs represents the mRNA having consecutive alignment of exons, which allowed deducing the complete amino acid sequence for human Sp1. Another cDNA clone had a surprising structure that possessed an alignment of exons 3-2-3. Both reverse transcriptase-polymerase chain reaction and RNase protection assays confirmed accumulation of the two forms of Sp1 mRNA in HepG2 cells. Because Southern blot analysis suggested that exon 3 is of a single copy in the genome, the cDNA clone having the duplicated sequences for exon 3 appeared to reflect the trans-splicing between pre-mRNAs of human Sp1.

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Exon repetition in mRNA

Cited by 52 publications

References 35 publications

Molecular mechanisms governing Pcdh-γ gene expression: Evidence for a multiple promoter and cis-alternative splicing model

Molecular mechanisms governing Pcdh-γ gene expression: Evidence for a multiple promoter and cis-alternative splicing model

Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line

Heterogeneous Sp1 mRNAs in Human HepG2 Cells Include a Product of Homotypic trans-Splicing

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