Tandem splice site database (TassDB)

Tandem splice site database (TassDB) catalogs tandem splice sites (GYNGYN donors and NAGNAG acceptors) and associated evidence and annotations to support study of subtle alternative splicing events that alter transcript and protein sequences.

Key Features:

• Relational database: Contains 114,554 tandem splice sites compiled across eight species.
• Tandem splice site types: Explicitly catalogs GYNGYN donor sites and NAGNAG acceptor sites.
• Experimental validation: Records 5,209 tandem splice sites validated by EST/mRNA evidence for alternative splicing.
• SNP annotations: Includes annotations of human single nucleotide polymorphisms (SNPs) that affect NAGNAG acceptors.
• Recorded functional effects: Documents splice-induced changes such as insertion/deletion of a single amino acid or substitution of one amino acid with two others.

Scientific Applications:

• Alternative splicing research: Enables analysis of subtle splice variations at tandem sites (GYNGYN and NAGNAG).
• Transcriptome and proteome complexity: Supports studies on how tandem splicing events contribute to transcript and protein diversity.
• Functional impact assessment: Facilitates investigation of single-amino-acid insertions/deletions and amino-acid substitutions resulting from tandem splicing.
• Genetic variation analysis: Allows examination of how human SNPs influence NAGNAG acceptor usage and splicing outcomes.

Methodology:

Relational database curation of 114,554 tandem splice sites across eight species with EST/mRNA-based validation for 5,209 sites and annotation of human SNPs affecting NAGNAG acceptors.