scholarly journals AS-ALPS: a database for analyzing the effects of alternative splicing on protein structure, interaction and network in human and mouse

2009 ◽  
Vol 37 (Database) ◽  
pp. D305-D309 ◽  
Author(s):  
M. Shionyu ◽  
A. Yamaguchi ◽  
K. Shinoda ◽  
K.-i. Takahashi ◽  
M. Go
Keyword(s):  
Alternative Splicing ◽  
Protein Structure ◽  
Structure Interaction ◽  
Human And Mouse

scholarly journals Alternative Splicing of Transcription Factors' Genes: Beyond the Increase of Proteome Diversity

2009 ◽  
Vol 2009 ◽  
pp. 1-6 ◽  
Author(s):  
David Talavera ◽  
Modesto Orozco ◽  
Xavier de la Cruz
Keyword(s):  
Transcription Factors ◽  
Alternative Splicing ◽  
Expression Patterns ◽  
Developmental Changes ◽  
Functional Families ◽  
Transcription Regulators ◽  
Alternatively Spliced ◽  
The Impact ◽  
Human And Mouse

Functional modification of transcription regulators may lead to developmental changes and phenotypical differences between species. In this work, we study the influence of alternative splicing on transcription factors in human and mouse. Our results show that the impact of alternative splicing on transcription factors is similar in both species, meaning that the ways to increase variability should also be similar. However, when looking at the expression patterns of transcription factors, we observe that they tend to diverge regardless of the role of alternative splicing. Finally, we hypothesise that transcription regulation of alternatively spliced transcription factors could play an important role in the phenotypical differences between species, without discarding other phenomena or functional families.

scholarly journals CELF2 regulates the species-specific alternative splicing of TREM2

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Motoaki Yanaizu ◽  
Chika Washizu ◽  
Nobuyuki Nukina ◽  
Jun-ichi Satoh ◽  
Yoshihiro Kino
Keyword(s):  
Alternative Splicing ◽  
Rna Binding ◽  
Rna Binding Proteins ◽  
Full Length ◽  
Splicing Regulation ◽  
Nonsense Mediated Mrna Decay ◽  
Specific Alternative ◽  
Species Specific ◽  
Human And Mouse ◽  
Paralogous Proteins

Abstract Genetic variations of TREM2 have been implicated as a risk factor of Alzheimer’s disease (AD). Recent studies suggest that the loss of TREM2 function compromises microglial responses to the accumulation of amyloid beta. Previously, we found that exon 3 of TREM2 is an alternative exon whose skipping leads to a reduction in full-length TREM2 protein by inducing nonsense-mediated mRNA decay. Here, we aimed to identify factors regulating TREM2 splicing. Using a panel of RNA-binding proteins, we found that exon 3 skipping of TREM2 was promoted by two paralogous proteins, CELF1 and CELF2, which were both linked previously with risk loci of AD. Although the overexpression of both CELF1 and CELF2 enhanced exon 3 skipping, only CELF2 reduced the expression of full-length TREM2 protein. Notably, the TREM2 ortholog in the green monkey, but not in the mouse, showed alternative splicing of exon 3 like human TREM2. Similarly, splicing regulation of exon 3 by CELF1/2 was found to be common to humans and monkeys. Using chimeric minigenes of human and mouse TREM2, we mapped a CELF-responsive sequence within intron 3 of human TREM2. Collectively, our results revealed a novel regulatory factor of TREM2 expression and highlighted a species-dependent difference of its regulation.

scholarly journals Structural Organization of the Human and Mouse Laminin β2 Chain Genes, and Alternative Splicing at the 5′ End of the Human Transcript

1996 ◽  
Vol 271 (23) ◽  
pp. 13407-13416 ◽  
Author(s):  
Marian E. Durkin ◽  
Medha Gautam ◽  
Frosty Loechel ◽  
Joshua R. Sanes ◽  
John P. Merlie ◽  
...  
Keyword(s):  
Alternative Splicing ◽  
Structural Organization ◽  
Human Transcript ◽  
Human And Mouse ◽  
Laminin Β2

scholarly journals TISA: Tissue-specific Alternative Splicing in Human and Mouse Genes

DNA Research ◽  
2006 ◽  
Vol 13 (5) ◽  
pp. 229-243 ◽  
Author(s):  
Seung-Jae Noh ◽  
Kyooyeol Lee ◽  
Hyojung Paik ◽  
Cheol-Goo Hur
Keyword(s):  
Alternative Splicing ◽  
Tissue Specific ◽  
Specific Alternative ◽  
Human And Mouse

scholarly journals Alternative splicing and expression of human and mouse NFAT genes

Genomics ◽  
2008 ◽  
Vol 92 (5) ◽  
pp. 279-291 ◽  
Author(s):  
Hanna Vihma ◽  
Priit Pruunsild ◽  
Tõnis Timmusk
Keyword(s):  
Alternative Splicing ◽  
Human And Mouse

scholarly journals Erratum to: Genomic organization and alternative splicing of the human and mouse RPTPρ genes: Correction

BMC Genomics ◽  
2001 ◽  
Vol 2 (1) ◽  
Author(s):  
Julie A Besco ◽  
Adrienne Frostholm ◽  
Magdalena C Popesco ◽  
Arthur HM Burghes ◽  
Andrej Rotter
Keyword(s):  
Alternative Splicing ◽  
Genomic Organization ◽  
Human And Mouse

scholarly journals A splice variant acquiring an extra transcript leader region decreases the translation of glutamine synthetase gene

2003 ◽  
Vol 374 (1) ◽  
pp. 175-184 ◽  
Author(s):  
Daesung SHIN ◽  
Sangjin PARK ◽  
Chankyu PARK
Keyword(s):  
Alternative Splicing ◽  
Glutamine Synthetase ◽  
Genomic Structure ◽  
Cell Types ◽  
Alternative Transcript ◽  
Exon Trapping ◽  
Exon 1 ◽  
Rapid Amplification ◽  
Altered Form ◽  
Human And Mouse

The expression of glutamine synthetase (GS), catalysing the ATP-dependent conversion of glutamate and ammonia into glutamine, is transcriptionally and post-transcriptionally regulated. The genomic structure of dog GS shown in the present study is basically similar to that of other mammals in that it is composed of seven exons and six introns. Using 5′-cRACE (where cRACE stands for circular rapid amplification of cDNA ends) and reverse transcriptase–PCR, we identified an additional exon (120 bp) in the first intron, designated in the present study as exon 1′. By means of alternative splicing, the GS gene produces an altered form of GS transcript with 5′-untranslated region (UTR) containing the exon 1′. This alternative transcript is abundantly expressed in brain, whereas it is found at lower levels in other tissues. In the human and mouse GS genes, extra exons are also found at the corresponding site of the intron 1 but with different sizes. An exon-trapping experiment for the GS gene in COS-7, Madin–Darby canine kidney and SK-N-SH cells revealed that the pattern of alternative splicing is variable in different cell types. The propensity of forming a secondary structure is predicted to be considerably higher in the presence of extra 5′-UTR, suggesting the possibility of a translational effect. To test this, we performed a reporter assay for fusions with different 5′-UTRs, demonstrating that the long form with extra 5′-UTR was translated 20- and 10-fold less than the short one in SK-N-SH and Neuro-2A cells respectively. Similarly, translations of human and mouse transcripts with extra 5′-UTRs were less efficient, showing 6–8-fold reductions in SK-N-SH cells. Furthermore, when we mutated an ATG sequence contained in the exon 1′, the suppression of translation was partially relieved, suggesting that the negative regulation by an extra 5′-UTR is, to some extent, due to an abortive translation from the upstream ATG.

Alternative splicing and structure of the human and mouse SFRS5/HRS/SRp40 genes

Gene ◽  
1997 ◽  
Vol 204 (1-2) ◽  
pp. 243-249 ◽  
Author(s):  
Keyong Du ◽  
Rebecca Taub
Keyword(s):  
Alternative Splicing ◽  
Human And Mouse
Sign in / Sign up

Export Citation Format

Share Document