circDiscoverer

Welcome to circDiscoverer

circDiscoverer is a comprehensive hg38-based database designed for the exploration and characterization of circRNA–protein interactions (CPIs) in humans. It leverages both literature-validated and computationally predicted datasets, enabling researchers to prioritize circRNAs for experimental validation and deeper biological insight.

circDiscoverer includes over 300 validated CPI studies and 378 predicted CPIs, of which 168 are unique and not present in other public CPI databases. Additionally, over 367,000 qRT-PCR primers and over 569,000 guide RNAs (gRNAs) are available for experimental validation. The database also integrates information on 10 types of RNA modifications, offering a rich resource for circRNA functional studies.

Explore Literatures of circRNA–Protein Interaction

Select or Type Protein:

Get circRNA's Binding to your Protein

Select or Type Protein:

Explore circRNA

Enter the circRNA ID:

Proteins Associated with circRNA

Proteins	Motifs	Occurrences

Guide RNAs targeting circRNA

Forward oligo(5'-3')	Reverse oligo(5'-3')	gRNA Spacer Length	RfxCas13d Plasmid Vector

Get Modifications in circRNA

Predicted Modifications	Experimentally Validated Modifications

qRT-PCR primers for circRNA

Forward Primer(5'-3')	Length	Tm(°C)	GC(%)	Reverse Primer(5'-3')	Length	Tm(°C)	GC(%)	Amplicon Size(bp)

circDiscoverer Tutorial

📄 Click here to open the Tutorial (PDF)

Contact the following persons

IISER-Bhopal

Dr. Ajit Chande
ajitg@iiserb.ac.in

Sreeram Srinivasan
sreeramkv2@gmail.com

THSTI-Faridabad

Prof. Samrat Chatterjee
samrat.chatterjee@thsti.res.in

Dr. Shivam Kumar
shvmkmr15@gmail.com

circRNA Tools Used

Species	Reference genome	circRNAs in BED format	circRNA sequences	GTF File
Human	GRCh38/hg38	human_bed_v3.0.txt	human_sequence.fa	Homo_sapiens.GRCh38.104.gtf

Tools Details

Tool Name	Description	Tool Link	DOI
CIRI2	Circular RNA identification based on multiple seed matching	Visit CIRI2	10.1093/bib/bbx014
CIRCexplorer2	Diverse alternative back-splicing and alternative splicing landscape of circular RNAs	Visit CIRCexplorer2	genome.cshlp.org/1277
FastPCR	Fast primer and probe design and sequence analysis	Visit FastPCR	10.1016/j.ygeno.2017.05.005
circDR-seq	HIV-1 Vpr induces ciTRAN to prevent transcriptional repression of the provirus	Visit circDR-seq	10.1126/sciadv.adh9170

Supplementary Materials

List of Databases for circRNA	List of Databases for CPI	Predicted CPIs	RNA Motifs
Literatures of CPI	qRT-PCR Primers	gRNAs and their oligos	circRNA Modifications Table

Codes used for analysis

🔗 Visit GitHub Repository