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The genome sequence of Drosophila melanogaster.
The nucleotide sequence of nearly all of the approximately 120-megabase euchromatic portion of the Drosophila genome is determined using a whole-genome shotgun sequencing strategy supported by extensive clone-based sequence and a high-quality bacterial artificial chromosome physical map.
Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies.
The algorithm of the Program to Assemble Spliced Alignments (PASA) tool is described, as well as the results of automated updates to Arabidopsis gene annotations.
Evolution of genes and genomes on the Drosophila phylogeny
These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution.
Sailfish enables alignment-free isoform quantification from RNA-seq reads using lightweight algorithms
Sailfish, a computational method for quantifying the abundance of previously annotated RNA isoforms from RNA-seq data, exemplifies the potential of lightweight algorithms for efficiently processing sequencing reads.
A catalogue of splice junction sequences.
- S. Mount
- BiologyNucleic acids research
- 22 January 1982
The sequence CAAG/GTAGAGT was found to be a consensus of 139 exon-intron boundaries (or donor sequences) and (TC)nNCTAG/G was found of 130 intron-exon boundaries ( or acceptor sequences).
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
Papaya offers numerous advantages as a system for fruit-tree functional genomics, and this draft genome sequence provides the foundation for revealing the basis of Carica’s distinguishing morpho-physiological, medicinal and nutritional properties.
Splicing signals in Drosophila: intron size, information content, and consensus sequences.
- S. Mount, C. Burks, G. Hertz, G. Stormo, O. White, C. Fields
- BiologyNucleic acids research
- 25 August 1992
A database of 209 Drosophila introns was extracted from Genbank and examined by a number of methods in order to characterize features that might serve as signals for messenger RNA splicing and found that there is a discontinuity in A + T content between exons and introns, which are A +T rich.
Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis
Alternative splicing is widespread in both rice and Arabidopsis and these species share many common features, indicating that many isoforms will presumably have negative consequences for protein structure and function, suggesting that their biological role involves post-transcriptional regulation of gene expression.
SplicePort—An interactive splice-site analysis tool
Interactive feature browsing and visualization tool that allows the user to make splice-site predictions for submitted sequences and browse the rich catalog of features that underlies these predictions, and which has been found capable of providing high classification accuracy on human splice sites.