UTRSite

UTRSite catalogs experimentally validated functional sequence patterns in eukaryotic mRNA 5' and 3' untranslated regions (UTRs) to support analysis of post-transcriptional gene regulation.

Key Features:

• Curated motif collection: Catalogs experimentally validated functional motifs within 5' and 3' UTRs.
• UTRdb integration: Linked with the curated UTRdb which aggregates 5' and 3' untranslated sequences from multiple primary data sources.
• Gene-centric organization: Organizes UTR entries by gene to represent variants arising from alternative transcription initiation, alternative termination, and alternative splicing.
• miRNA and conserved element annotation: Annotates experimentally validated microRNA (miRNA) targets and conserved sequence elements within UTRs.
• Regulatory protein cross-links: Provides cross-links between UTR motifs and interacting regulatory proteins.
• Genomic integration and annotation: Integrates UTRdb with genomic data to enable an annotation system and efficient retrieval of UTR subsets.

Scientific Applications:

• Functional motif analysis: Enables exploration and analysis of functional sequence patterns within 5' and 3' UTRs.
• Post-transcriptional regulation studies: Supports investigation of processes such as nucleo-cytoplasmic mRNA transport, translation efficiency, subcellular localization, and message stability.
• miRNA target investigation: Facilitates study of experimentally validated microRNA (miRNA) interactions in UTRs.
• Conserved element research: Supports analysis of conserved sequence elements across UTRs.
• UTR selection for functional genomics: Serves as a retrieval resource for selecting and extracting specific subsets of UTR sequences for research needs.

Methodology:

Aggregates 5' and 3' untranslated sequences from multiple primary data sources into UTRdb; curates and catalogs experimentally validated functional motifs; annotates microRNA (miRNA) targets and conserved sequence elements; cross-links motifs to interacting regulatory proteins; and integrates UTRdb with genomic data to produce an annotation system that enables retrieval and extraction of specific UTR subsets.