UTRome

UTRome v2 provides high-resolution mappings of 3' untranslated regions (3' UTRs) for Caenorhabditis elegans mRNAs to support studies of mRNA cleavage and polyadenylation, alternative polyadenylation, and microRNA (miRNA) targeting.

Key Features:

• Comprehensive Data Coverage: UTRome v2 contains ultra-resolution mappings of 23,084 3'-UTR isoform variants corresponding to 14,788 protein-coding genes derived from a genome-wide bioinformatics analysis of 1,088 raw transcriptome datasets (2015–2018).
• High-Resolution Mapping: 3'-UTR coordinates and isoforms are reported at single-base resolution.
• Integration with Existing Databases: Annotations are integrated with WormBase and PicTar alongside newly generated UTRome annotations.
• Updated Resource: Dataset annotations are aligned with the current WormBase release.

Scientific Applications:

• Study of mRNA Cleavage and Polyadenylation: Enables investigation of cleavage and polyadenylation site usage and regulatory principles in C. elegans mRNAs.
• 3'-UTR Biology Exploration: Supports analysis of 3' UTR isoform diversity and its role in post-transcriptional regulation.
• miRNA Targeting Investigations: Facilitates mapping and assessment of potential miRNA target sites within 3' UTRs.

Methodology:

Raw transcriptome data were downloaded from the NCBI Sequence Read Archive (SRA), extracted and mapped genome-wide to generate high-resolution 3' UTR annotations, which were then integrated with WormBase and PicTar annotations.