| Accession | GenProp0319 |
| Name | CRISPR system, I-A/Apern subtype |
| Type | SYSTEM |
| Description | CRISPR 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 Role | Other |
| Parent Property | GenProp0021: 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
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| Step Name | Step Num | Required | Evidence (Method) | Evidence Go Terms |
|---|
| Cas1, Apern region | Cas1 | YES | TIGR00287 (HMM-CLUST): CRISPR-associated endonuclease Cas1 | |
| Cas2, Apern region | Cas2 | YES | TIGR01573 (HMM-CLUST): CRISPR-associated endonuclease Cas2 | |
| Cas3, Apern region | Cas3 | YES | TIGR01587 (HMM-CLUST): CRISPR-associated helicase Cas3 | |
| Cas3b, Apern region | Cas3b | YES | TIGR01596 (HMM-CLUST): CRISPR-associated endonuclease Cas3-HD | |
| Cas4, Apern region | Cas4 | YES | TIGR00372 (HMM-CLUST): CRISPR-associated protein Cas4 | |
| Cas5, Apern specific variant | Cas5a | YES | TIGR01874 (HMM): CRISPR-associated protein Cas5, subtype I-A/APERN | |
| Cas6, Apern region | Cas6 | YES | TIGR01877 (HMM-CLUST): CRISPR-associated endoribonuclease Cas6 | |
| Csa1 | Csa1 | YES | TIGR01896 (HMM): CRISPR-associated protein Cas4/Csa1, subtype I-A/APERN | |
| Csa2, regulatory protein | Csa2 | YES | TIGR02583 (HMM): CRISPR-associated protein Cas7/Csa2, subtype I-A/APERN | |
| Csa3, DNA-binding protein | Csa3 | YES | TIGR01884 (HMM): CRISPR locus-related DNA-binding protein | |
| Csa4 | Csa4 | NO | TIGR01914 (HMM): CRISPR-associated protein Cas8a2/Csa4, subtype I-A/APERN
TIGR02671 (HMM): CRISPR-associated protein Cas8a2/Csx9, subtype I-A/APERN | |
| Csa5 | Csa5 | NO | TIGR01878 (HMM): CRISPR type I-A/APERN-associated protein Csa5 | |
| CRISPR-associated protein, CsaX family | CsaX | NO | TIGR03876 (HMM): CRISPR type I-A/APERN-associated protein CsaX | |
| Accession | Name |
|---|
| GenProp0310 | CRISPR system, I-F/Ypest subtype |
| GenProp0313 | CRISPR system, I-C/Dvulg subtype |
| GenProp0314 | CRISPR system, II/Nmeni subtype |
| GenProp0315 | CRISPR system, I-E/Ecoli subtype |
| GenProp0316 | CRISPR system, III-B/RAMP module subtype |
| GenProp0317 | CRISPR system, I-B subtype, Tneap branch |
| GenProp0318 | CRISPR system, III-A/Mtube subtype |
| GenProp0320 | CRISPR system, I-B subtype, Hmari branch |
| GenProp0469 | CRISPR system, Dpsyc subtype |
| GenProp0670 | CRISPR system, Aferr subtype |
| GenProp0685 | CRISPR system, I-D/Cyano subtype |
| GenProp0768 | CRISPR system, Pging subtype |
| GenProp0922 | CRISPR system, Myxan subtype |
| GenProp1061 | CRISPR system, PreFran subtype |
