PlantcircBase 7.0

PlantcircBase 7.0 catalogs plant circular RNAs (circRNAs), providing sequence data, conservation scores, and confidence metrics to support comparative and functional studies across plant species.

Key Features:

• Extensive CircRNA Repository: Contains 171,118 circRNAs derived from 21 plant species.
• Full-Length Transcript Availability: Provides full-length sequences for over 31,000 circRNAs reconstructed from analysis of 749 bulk RNA sequencing (RNA-seq) datasets and supplemented with Nanopore long-read sequencing data generated for rice.
• Conservation Analysis (Plant Multiple Conservation Score, PMCS): Implements PMCS to evaluate circRNAs by combining sequence conservation and expression profile consistency across plant species.
• Reliability Assessment (Plant CircRNA Confidence Level, PCCL): Reports PCCL to assess circRNA identity reliability by integrating experimental validation results and the number of supporting references.

Scientific Applications:

• Functional characterization: Supports investigation of circRNA roles and potential functions in plant biological processes.
• Comparative and evolutionary analysis: Enables assessment of cross-species conservation and expression patterns of circRNAs using PMCS.
• Crop research: Facilitates studies linking circRNAs to crop resilience and productivity.

Methodology:

Full-length circRNA sequences were reconstructed from 749 bulk RNA-seq datasets and supplemented with Nanopore long-read sequencing for rice; PMCS evaluates sequence conservation and expression-profile consistency; PCCL integrates experimental validation outcomes and counts of supporting references.