Download Data
Download circRNA data in BED format and other file formats
CircRNA Data Download
About These Datasets
These datasets contain circular RNA genomic coordinates and annotations in BED format, which can be used for:
- Visualization in genome browsers (UCSC, IGV, etc.)
- Overlap analysis with other genomic features
- Batch processing of circRNA data
- Integration with other bioinformatics workflows
Human circRNAs
DownloadBED format data for all human circular RNAs in the database
Mouse circRNAs
DownloadBED format data for all mouse circular RNAs in the database
Rhesus macaque circRNAs
DownloadBED format data for all rhesus macaque circular RNAs in the database
Crab-eating macaque circRNAs
DownloadBED format data for all crab-eating macaque circular RNAs in the database
Brown rat circRNAs
DownloadBED format data for all brown rat circular RNAs in the database
File Format Information
BED Format Specification
All circRNA data is provided in BED format, a tab-delimited text format used for describing genomic features. Each line represents a circRNA and contains the following fields:
Example of a circRNA entry:
Where:
- chromosome: The chromosome name
- start: The starting position (0-based)
- end: The end position (exclusive)
- name: CircRNA identifier
- score: A score between 0-1000
- strand: + or - for strand orientation
- thickStart/thickEnd: The positions where features are drawn thickly
- itemRgb: RGB value for display color
- blockCount: Number of exons
- blockSizes: Comma-separated list of exon sizes
- blockStarts: Comma-separated list of exon starts relative to start
Using BED Files
These BED files can be used in various ways:
- Genome Browsers: Upload to UCSC Genome Browser or IGV to visualize circRNAs in genomic context.
- Bioinformatics Tools: Use with BEDTools, bedops, or similar utilities for genomic analyses.
- Custom Analysis: Parse with Python, R, or other programming languages using libraries like pybedtools or GenomicRanges.
Example command to count overlaps with another feature: