PsRNA

PsRNA identifies genus-specific intergenic regions to detect and characterize novel small RNA (sRNA) candidates across related genomes.

Key Features:

• Intergenic Region Analysis: Identifies putative sRNA regions within genus-specific intergenic sequences.
• Template-Based Search Engine: Locates similar sRNA regions using experimentally validated sRNA templates.
• Functional Annotation via KO Terms: Uses KEGG Orthology (KO) numbers to pinpoint conserved, shuffled, or deleted gene clusters within query genomes for functional genomics insights.
• Adaptive Sensitivity: Enhances identification sensitivity by expanding KO number assignments to genes as new annotations become available.

Scientific Applications:

• Enterobacteriaceae Genomics: Identifies and annotates putative sRNAs in Enterobacteriaceae to investigate their regulatory roles and genomic organization.

Methodology:

Integrates known sRNA sequences, experimentally validated templates, flanking gene information, and KEGG Orthology (KO) numbers to search for analogous intergenic regions across related genomes and to detect conserved, shuffled, or deleted gene clusters.