Results 21 to 30 of about 540 (209)
Genome Biology, 2022 Background Accurate and comprehensive annotation of transcript sequences is essential for transcript quantification and differential gene and transcript expression analysis.
Runxuan Zhang +38 more
doaj +1 more source
Impact of RNA structure on the prediction of donor and acceptor splice sites [PDF]
BMC Bioinformatics, 2006 Abstract Background gene identification in genomic DNA sequences by computational methods has become an important task in bioinformatics and computational gene prediction tools are now essential components of every genome sequencing project.
Sayed-Amir Marashi +3 more
openaire +3 more sources
The RNA structure of the major splice donor site controls HIV-1 splicing [PDF]
Retrovirology, 2013 Background The unspliced HIV-1 RNA is used as mRNA for translation of the Gag and Pol proteins and packaged as genomic RNA in the virion. In addition, HIV-1 produces more than 40 differentially spliced transcripts that encode the other viral proteins. Regulation of splicing is essential for the production of all unspliced and spliced viral RNAs. The 5’
Mueller, Nancy, Berkhout, Ben, Das, Atze
openaire +1 more source
Sequence Analysis of In Vivo-Expressed HIV-1 Spliced RNAs Reveals the Usage of New and Unusual Splice Sites by Viruses of Different Subtypes. [PDF]
PLoS ONE, 2016 HIV-1 RNAs are generated through a complex splicing mechanism, resulting in a great diversity of transcripts, which are classified in three major categories: unspliced, singly spliced (SS), and doubly spliced (DS). Knowledge on HIV-1 RNA splicing in vivo
Yolanda Vega +14 more
doaj +1 more source
HIV-1 splicing at the major splice donor site is restricted by RNA structure
Virology, 2014 The 5' leader region of the HIV-1 RNA contains the major 5' splice site (ss) that is used in the production of all spliced viral RNAs. This splice-donor (SD) region can fold a stem-loop structure. We demonstrate that whereas stabilization of this SD hairpin reduces splicing efficiency, destabilization increases splicing.
Mueller, Nancy +3 more
openaire +2 more sources
PLoS Pathogens, 2022 Adenovirus is a common human pathogen that relies on host cell processes for transcription and processing of viral RNA and protein production. Although adenoviral promoters, splice junctions, and polyadenylation sites have been characterized using low ...
Alexander M Price +12 more
doaj +1 more source
Frontiers in Plant Science, 2022 Granule-bound starch synthase I (HvGBSSI) is encoded by the barley waxy (Wx-1) gene and is the sole enzyme in the synthesis of amylose. Here, a Wx-1 mutant was identified from an ethyl methane sulfonate (EMS)-mutagenized barley population. There were two single-base mutations G1086A and A2424G in Wx-1 in the mutant (M2-1105).
Xiuqin Feng +39 more
openaire +3 more sources
Computation, 2015 One fundamental problem of bioinformatics is the computational recognition of DNA and RNA binding sites. Given a set of short DNA or RNA sequences of equal length such as transcription factor binding sites or RNA splice sites, the task is to learn a ...
Anja Fischer +5 more
doaj +1 more source
SpliceAid-F: a database of human splicing factors and their RNA-binding sites [PDF]
Nucleic Acids Research, 2012 A comprehensive knowledge of all the factors involved in splicing, both proteins and RNAs, and of their interaction network is crucial for reaching a better understanding of this process and its functions. A large part of relevant information is buried in the literature or collected in various different databases.
Matteo Giulietti +11 more
openaire +4 more sources
iCLIP predicts the dual splicing effects of TIA-RNA interactions.
PLoS Biology, 2010 The regulation of alternative splicing involves interactions between RNA-binding proteins and pre-mRNA positions close to the splice sites. T-cell intracellular antigen 1 (TIA1) and TIA1-like 1 (TIAL1) locally enhance exon inclusion by recruiting U1 ...
Zhen Wang +8 more
doaj +1 more source