SinEx

SinEx catalogs single-exon coding sequences (CDSs), also known as single-exon genes (SEGs), across eukaryotic genomes to support analyses of their origin, evolution, and functional roles.

Key Features:

• Extensive Genome Coverage: Includes data from 60 completely sequenced eukaryotic genomes spanning animals, fungi, protists, and plants.
• Functional Predictions and Annotations: Provides functional assignments using euKaryotic Orthologous Groups (KOG) and Gene Ontology (GO) annotations.
• Advanced Data Management: Stores SEG sequences and their functional assignations in a relational MySQL Server 5.7 database.
• Novel Pipeline for Disambiguation: Implements a pipeline to disambiguate single-exon isoforms from true SEGs.

Scientific Applications:

• Evolutionary and Comparative Genomics: Enabling comparative studies of the distribution and evolutionary origins of SEGs across eukaryotes.
• Functional Characterization: Supporting inference of biological roles for SEGs via KOG and GO-based functional annotations.
• Disease Association Studies: Facilitating investigations into links between SEGs and human cancers and neurological developmental disorders.
• Tissue-specific Transcription Analysis: Allowing study of tissue-specific transcription patterns of SEGs.

Methodology:

Functional assignments use euKaryotic Orthologous Groups (KOG) and Gene Ontology (GO) annotations; a pipeline disambiguates single-exon isoforms from true SEGs; datasets are stored in a relational MySQL Server 5.7 database derived from 60 completely sequenced eukaryotic genomes spanning animals, fungi, protists, and plants.