CRISPR RGEN Tools

Cas-Database

Optimal seletion of guide RNAs on the genome-scale.

Cas-Database is a genome-wide gRNA library design tool for Cas9 nucleases from Streptococcus pyogenes (SpCas9). It contains all available targets of SpCas9 nucleases that recognizes 5’-NGG-3’ PAM sequences in all coding sequence (CDS) regions. Users can select optimal target sequences from thousands of genes at once simply by changing the filtering conditions (see tutorial here). In addition, Cas-Database also provides a web application programming interface (web API) for information about advanced use.

(Updated) Please click here to visit Cas-Database for Cpf1.

Citation info: Park J., Kim J.-S., and Bae S. Cas-Database: Web-based genome-wide guide RNA library design for gene knockout screens using CRISPR-Cas9. Bioinformatics 32, 2017-2023 (2016).

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Total 0 genes are listed.

Symbol	Gene ID	Description	Biotype	Action

Filter

# of mismatches (0, 1, 2) , , [?]	Most common exons coverage [?]	Out-of-frame score more than [?]
GC contents % ~ % [?]	Relative cleavage pos in CDS % ~ % [?]	Exclude 4 repeated thymidines (TTTT) [?]
Starting with 'G' at 5' end [?]	Starting with 'GG' at 5' end [?]	Starting with 'GA' at 5' end [?]

Gene

Symbol	Gene ID	Gene Name

Transcripts (including CDS only)

Transcript ID	Biotype	Number of Targets	Number of Filtered Targets

Target sites (graphic)

Target sites (filtered)

No.	Transcript ID [?]	Target (5' to 3') [?]	Location [?]	Out-of-frame score [?]	Relative cleavage pos in CDS (%) [?]	Coverage [?]	GC contents [?]	# of off-targets (0, 1, 2) [?]

Collection (0 genes) Import genes from file... Select optimal crRNAs