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CRISPRTarget specifications


Unique identifier OMICS_03712
Name CRISPRTarget
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for CRISPRTarget



2013 RNA Biol
PMCID: 3737339
PMID: 23492433
DOI: 10.4161/rna.24046

CRISPRTarget citations


CRISPR Cas Systems in Bacteroides fragilis, an Important Pathobiont in the Human Gut Microbiome

Front Microbiol
PMCID: 5704556
PMID: 29218031
DOI: 10.3389/fmicb.2017.02234

[…] Clustered regularly interspaced short palindromic repeats (CRISPR) targets were identified by submitting the spacer sequences to analysis with the CRISPR Target tool ( searching the GenBank Phage, RefSeq Bacteria, RefSeq plasmid and RefSeq viral databases. We also searched the Nucleotide collection (nr/nt) at NCBI using the default parameters, both wit […]


Characterizing a thermostable Cas9 for bacterial genome editing and silencing

Nat Commun
PMCID: 5698299
PMID: 29162801
DOI: 10.1038/s41467-017-01591-4

[…] AM preferences for successful cleavage of a DNA target. We used the 10 spacers of the G. thermodenitrificans T12 CRISPR locus to search for potential protospacers in viral and plasmid sequences using CRISPRtarget. As only two hits were obtained with phage genomes (Supplementary Fig. ), it was decided to proceed with an in vitro PAM determination approach. The predicted sgRNA sequence was generated […]


CRISPR like sequences in Helicobacter pylori and application in genotyping

PMCID: 5693588
PMID: 29177012
DOI: 10.1186/s13099-017-0215-8

[…] equence alignment (MSA) using MEGA7 software []. The spacers of CRISPR were classified according to a phylogenetic tree inferred using MEGA7 software, and the spacer sequences were analyzed using the CRISPRTarget tool ( […]


A thermostable Cas9 with increased lifetime in human plasma

Nat Commun
PMCID: 5681539
PMID: 29127284
DOI: 10.1038/s41467-017-01408-4

[…] Cas9 homologs and DNA targets are often mutated in this region to escape cleavage by Cas9. To identify the PAM for GeoCas9, we first searched for naturally targeted viral and plasmid sequences using CRISPRtarget. The three sequenced strains of G. st. provided 77 spacer sequences, and 3 of them had high-confidence viral and plasmid targets (Supplementary Fig. , Supplementary Data ). Extracting the […]


Benefits of Genomic Insights and CRISPR Cas Signatures to Monitor Potential Pathogens across Drinking Water Production and Distribution Systems

Front Microbiol
PMCID: 5654357
PMID: 29097994
DOI: 10.3389/fmicb.2017.02036

[…] cas genes and additional signature genes (Makarova et al., ). Additionally, we investigated the possible targets (protospacers) of spacers in CRISPR-Cas arrays within the obtained draft genomes using CRISPRTarget to search against all the available databases (i.e., GenBank-Phage, GenBank-Environmental, RefSeq-Plasmid, RefSeq-Viral, and RefSeq-Bacteria), which was combined with the known features o […]


First draft genome sequence of a strain belonging to the Zoogloea genus and its gene expression in situ

Stand Genomic Sci
PMCID: 5648520
PMID: 29075368
DOI: 10.1186/s40793-017-0274-y

[…] espectively. 5202 of the predicted amino acid sequences were annotated with 13,030 Pfam IDs. Finally, metaCRT [] was used to predict CRISPR loci and the resulting CRISPR-spacers were submitted to the CRISPRtarget server [] for the identification of putatively associated bacteriophage sequences. […]


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CRISPRTarget institution(s)
Department of Biochemistry; University of Otago; Dunedin, New Zealand; Laboratory of Microbiology; Wageningen University; Wageningen, Netherlands; Department of Microbiology and Immunology; University of Otago; Dunedin, New Zealand; Genetics Otago; University of Otago; New Zealand

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