CRISPR RGEN Tools

Cpf1-Database

Optimal seletion of guide RNAs on the genome scale.

Cpf1-Database is a genome-wide gRNA library design tool for Cpf1. It contains all available targets of Acidaminococcus sp. Cpf1 (AsCpf1) or Lachnospiraceae bacterium Cpf1 (LbCpf1) that recognizes 5’-TTTN-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, please see a web application programming interface (web API) for information about advanced use. Current version of genome assemblies are noted here.

Citation info: Park J. and Bae S. Cpf1-Database: web-based genome-wide guide RNA library design for gene knockout screens using CRISPR-Cpf1. Bioinformatics 34, 1077-1079 (2018)

Organism Type:

Organism:

Category:

Search:

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