Genome Property Definition Page

NameCRISPR system, I-A/Apern subtype
DescriptionCRISPR repeats are by definition Clustered Regularly Interspaced Short Palindromic Repeats, described by Jansen [1]. Certain proteins, including Cas1 to Cas4, are found only in genomes with CRISPR repeats, and are near these repeats. Jansen, et al. describe CRISPR loci as having direct repeats, varying in size from 21 to 37 bp, interspaced by similarly sized non-repetitive sequences. Variants of CRISP/Cas loci (subtypes) have been described (Haft, Selengut, et al., submitted) in which certain groups of subtype-specific genes are found in addition to characteristic sets of the more widely distributed cas genes. The Apern subtype, so named because this subtype is the only one found in the genome of Archaeoglobus pernix, consists of cas1-6, the subtype specific genes csa1-3 and either csa4 or csa5. The repeats associated with this subtype tend to have a periodicity of 66 nucleotides. This subtype is found exclusively in Archaea, primarily in the Chrenarchaeota.
JCVI RoleOther
Parent PropertyGenProp0021: CRISPR region
Literature References
[ 1 ]Jansen R, Embden JD, Gaastra W, Schouls LM  Identification of genes that are associated with DNA repeats in prokaryotes.  Mol Microbiol 2002 Mar;43(6):1565-75.  PMID 11952905

Step NameStep NumRequiredEvidence (Method)Evidence Go Terms
Cas1, Apern regionCas1YESTIGR00287 (HMM-CLUST): CRISPR-associated endonuclease Cas1
Cas2, Apern regionCas2YESTIGR01573 (HMM-CLUST): CRISPR-associated endonuclease Cas2
Cas3, Apern regionCas3YESTIGR01587 (HMM-CLUST): CRISPR-associated helicase Cas3
Cas3b, Apern regionCas3bYESTIGR01596 (HMM-CLUST): CRISPR-associated endonuclease Cas3-HD
Cas4, Apern regionCas4YESTIGR00372 (HMM-CLUST): CRISPR-associated protein Cas4
Cas5, Apern specific variantCas5aYESTIGR01874 (HMM): CRISPR-associated protein Cas5, subtype I-A/APERN
Cas6, Apern regionCas6YESTIGR01877 (HMM-CLUST): CRISPR-associated endoribonuclease Cas6
Csa1Csa1YESTIGR01896 (HMM): CRISPR-associated protein Cas4/Csa1, subtype I-A/APERN
Csa2, regulatory proteinCsa2YESTIGR02583 (HMM): CRISPR-associated protein Cas7/Csa2, subtype I-A/APERN
Csa3, DNA-binding proteinCsa3YESTIGR01884 (HMM): CRISPR locus-related DNA-binding protein
Csa4Csa4NOTIGR01914 (HMM): CRISPR-associated protein Cas8a2/Csa4, subtype I-A/APERN
TIGR02671 (HMM): CRISPR-associated protein Cas8a2/Csx9, subtype I-A/APERN
Csa5Csa5NOTIGR01878 (HMM): CRISPR type I-A/APERN-associated protein Csa5
CRISPR-associated protein, CsaX familyCsaXNOTIGR03876 (HMM): CRISPR type I-A/APERN-associated protein CsaX

Parent Properties
GenProp0021CRISPR region

Sibling Properties
GenProp0310CRISPR system, I-F/Ypest subtype
GenProp0313CRISPR system, I-C/Dvulg subtype
GenProp0314CRISPR system, II/Nmeni subtype
GenProp0315CRISPR system, I-E/Ecoli subtype
GenProp0316CRISPR system, III-B/RAMP module subtype
GenProp0317CRISPR system, I-B subtype, Tneap branch
GenProp0318CRISPR system, III-A/Mtube subtype
GenProp0320CRISPR system, I-B subtype, Hmari branch
GenProp0469CRISPR system, Dpsyc subtype
GenProp0670CRISPR system, Aferr subtype
GenProp0685CRISPR system, I-D/Cyano subtype
GenProp0768CRISPR system, Pging subtype
GenProp0922CRISPR system, Myxan subtype
GenProp1061CRISPR system, PreFran subtype