Cyanobacterium aponinum PCC 10605 plasmid pCYAN10605.01, complete sequence.
Bacteria; Cyanobacteriota; Cyanophyceae; Oscillatoriophycideae; Chroococcales; Geminocystaceae; Cyanobacterium.
Finished genome of plasmid of Cyanobacterium sp. PCC 10605
Submitted (01-MAY-2012) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP003948.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4088214\nSource DNA and Organism available from Cheryl A. Kerfeld\n(CKerfeld@lbl.gov)\nContacts: Cheryl A. Kerfeld (CKerfeld@lbl.gov)\n Tanja Woyke (microbe@cuba.jgi-psf.org)\nWhole genome sequencing and draft assembly at JGI-PGF\nAnnotation by JGI-ORNL\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376).\nThe annotation was added by the NCBI Prokaryotic Genome Annotation\nPipeline (PGAP). Information about PGAP can be found here:\nhttps://www.ncbi.nlm.nih.gov/genome/annotation_prok/\n\n##MIGS-Data-START##\ninvestigation_type :: bacteria_archaea\nproject_name :: Cyanobacterium sp. PCC 10605\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Missing\nenvironment :: Fresh water\nnum_replicons :: 2\nref_biomaterial :: PCC 10605\nbiotic_relationship :: Free living\ntrophic_level :: Photoheterotroph\nrel_to_oxygen :: Aerobe\nisol_growth_condt :: Missing\nsequencing_meth :: WGS\nassembly :: Newbler v. 2.3 (pre-release), VELVET v.\n 1.0.13, Parallel phrap v. 4.24 SPS\nfinishing_strategy :: Finished\nGOLD Stamp ID :: Gi04526\nFunding Program :: DOE-GEBA 2009\nTemperature Range :: Mesophile\nDiseases :: None\n##MIGS-Data-END##\n\n##Genome-Assembly-Data-START##\nFinishing Goal :: Finished\nCurrent Finishing Status :: Finished\nAssembly Method :: Newbler v. 2.3 (pre-release), VELVET v.\n 1.0.13, Parallel phrap v. 4.24 SPS\nGenome Coverage :: 30x\nSequencing Technology :: 454/Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/01/2023 01:17:58\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,592\nCDSs (total) :: 3,536\nGenes (coding) :: 3,487\nCDSs (with protein) :: 3,487\nGenes (RNA) :: 56\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 43\nncRNAs :: 4\nPseudo Genes (total) :: 49\nCDSs (without protein) :: 49\nPseudo Genes (ambiguous residues) :: 0 of 49\nPseudo Genes (frameshifted) :: 14 of 49\nPseudo Genes (incomplete) :: 29 of 49\nPseudo Genes (internal stop) :: 12 of 49\nPseudo Genes (multiple problems) :: 4 of 49\nCRISPR Arrays :: 10\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
reference material of Cyanobacterium aponinum
COORDINATES: similar to AA sequence:RefSeq:WP_015179882.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:NF024547.2
COORDINATES: protein motif:HMM:NF012789.2
COORDINATES: similar to AA sequence:RefSeq:WP_017307358.1
COORDINATES: similar to AA sequence:RefSeq:WP_012599569.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_013325391.1
COORDINATES: similar to AA sequence:RefSeq:WP_009786257.1
COORDINATES: protein motif:HMM:NF013122.2
GO:0008408 - 3'-5' exonuclease activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015143406.1
COORDINATES: similar to AA sequence:RefSeq:WP_015218731.1
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008197021.1
COORDINATES: similar to AA sequence:RefSeq:WP_018679431.1
COORDINATES: similar to AA sequence:RefSeq:WP_006668373.1
GO:0004803 - transposase activity [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_015213509.1
COORDINATES: similar to AA sequence:RefSeq:WP_019491557.1
COORDINATES: similar to AA sequence:RefSeq:WP_015222378.1
COORDINATES: similar to AA sequence:RefSeq:WP_015217718.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0043571 - maintenance of CRISPR repeat elements [Evidence IEA]
type III-B CRISPR-associated protein Cas10/Cmr2
COORDINATES: similar to AA sequence:RefSeq:WP_002741941.1
type III-B CRISPR module-associated Cmr3 family protein
COORDINATES: similar to AA sequence:RefSeq:WP_017303836.1
type III-B CRISPR module RAMP protein Cmr4
COORDINATES: similar to AA sequence:RefSeq:WP_002734817.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_002768488.1
COORDINATES: similar to AA sequence:RefSeq:WP_017303838.1
RAMP superfamily CRISPR-associated protein
COORDINATES: protein motif:HMM:NF021196.2
COORDINATES: protein motif:HMM:NF024676.2
GO:0003676 - nucleic acid binding [Evidence IEA]
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF040558.1
COORDINATES: similar to AA sequence:RefSeq:WP_009546838.1
GO:0004520 - endodeoxyribonuclease activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011153761.1
GO:0004521 - endoribonuclease activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF024811.2
COORDINATES: protein motif:HMM:NF022442.2
COORDINATES: protein motif:HMM:NF024880.2
GO:0008168 - methyltransferase activity [Evidence IEA]; GO:1904047 - S-adenosyl-L-methionine binding [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009788052.1
COORDINATES: protein motif:HMM:NF012862.2
GO:0008234 - cysteine-type peptidase activity [Evidence IEA]
COORDINATES: protein motif:HMM:NF013152.2
GO:0003796 - lysozyme activity [Evidence IEA]
GO:0016998 - cell wall macromolecule catabolic process [Evidence IEA]; GO:0009253 - peptidoglycan catabolic process [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015080855.1
COORDINATES: protein motif:HMM:NF018601.2
COORDINATES: similar to AA sequence:RefSeq:WP_009788068.1
COORDINATES: protein motif:HMM:NF025577.2
COORDINATES: protein motif:HMM:NF012774.2