Oscillatoria acuminata PCC 6304 plasmid pOSCIL6304.01, complete sequence.
Bacteria; Cyanobacteriota; Cyanophyceae; Oscillatoriophycideae; Oscillatoriales; Oscillatoriaceae; Oscillatoria.
Finished plasmid 1 of genome of Oscillatoria acuminata PCC 6304
Submitted (04-JUN-2012) US DOE Joint Genome Institute, 2800 Mitchell Drive B310, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP003608.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4086915\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 :: Oscillatoria acuminata PCC 6304\ncollection_date :: Missing\nlat_lon :: Missing\ndepth :: Missing\nalt_elev :: Missing\ncountry :: USA\nenvironment :: Missing\nnum_replicons :: 3\nref_biomaterial :: PCC 6304\nbiotic_relationship :: Free living\ntrophic_level :: Missing\nrel_to_oxygen :: Missing\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 :: Gi04162\nFunding Program :: DOE-GEBA 2009\nGene Calling Method :: GenePrimp, Prodigal 1.4\nIsolation Site :: soil\nIsolation Comments :: isolated by MB Allen\nTemperature Range :: Mesophile\nGram Staining :: Gram-\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 :: 06/09/2023 22:09:51\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) :: 6,148\nCDSs (total) :: 6,068\nGenes (coding) :: 5,975\nCDSs (with protein) :: 5,975\nGenes (RNA) :: 80\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 67\nncRNAs :: 4\nPseudo Genes (total) :: 93\nCDSs (without protein) :: 93\nPseudo Genes (ambiguous residues) :: 0 of 93\nPseudo Genes (frameshifted) :: 37 of 93\nPseudo Genes (incomplete) :: 52 of 93\nPseudo Genes (internal stop) :: 21 of 93\nPseudo Genes (multiple problems) :: 14 of 93\nCRISPR Arrays :: 6\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
reference strain of Oscillatoria acuminata
COORDINATES: protein motif:HMM:NF012744.2
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012888.2
COORDINATES: protein motif:HMM:NF016464.2
COORDINATES: protein motif:HMM:NF012573.2
GO:0005509 - calcium ion binding [Evidence IEA]
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_014271881.1
COORDINATES: similar to AA sequence:RefSeq:WP_015163272.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152101.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015146420.1
GO:0004803 - transposase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015152078.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152079.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152080.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152081.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152082.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152083.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152084.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152085.1
GO:0000166 - nucleotide binding [Evidence IEA]
GO:0030541 - plasmid partitioning [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015152086.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152087.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152088.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152089.1
COORDINATES: protein motif:HMM:NF024835.2
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_015152092.1
COORDINATES: similar to AA sequence:RefSeq:WP_014511109.1
COORDINATES: similar to AA sequence:RefSeq:WP_015152072.1
COORDINATES: similar to AA sequence:RefSeq:WP_019603000.1
type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016951562.1
nucleotidyl transferase AbiEii/AbiGii toxin family protein
COORDINATES: similar to AA sequence:RefSeq:WP_015152070.1
COORDINATES: protein motif:HMM:NF024180.2
COORDINATES: similar to AA sequence:RefSeq:WP_017313869.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_015152108.1
COORDINATES: protein motif:HMM:NF014548.2
COORDINATES: similar to AA sequence:RefSeq:WP_007355943.1
COORDINATES: similar to AA sequence:RefSeq:WP_006624929.1
COORDINATES: similar to AA sequence:RefSeq:WP_009545072.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_018400989.1
COORDINATES: similar to AA sequence:RefSeq:WP_009458494.1
GO:0005515 - protein binding [Evidence IEA]; GO:0004521 - RNA endonuclease activity [Evidence IEA]
putative toxin-antitoxin system toxin component, PIN family
COORDINATES: similar to AA sequence:RefSeq:WP_017304368.1
toxin-antitoxin system HicB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_018400988.1
GO:0050656 - 3'-phosphoadenosine 5'-phosphosulfate binding [Evidence IEA]; GO:0008146 - sulfotransferase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016514504.1
COORDINATES: similar to AA sequence:RefSeq:WP_015224009.1
COORDINATES: similar to AA sequence:RefSeq:WP_007922522.1
COORDINATES: protein motif:HMM:NF013226.2
phytanoyl-CoA dioxygenase family protein
COORDINATES: similar to AA sequence:RefSeq:WP_010999819.1
COORDINATES: similar to AA sequence:RefSeq:WP_010999913.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
GO:0016757 - glycosyltransferase activity [Evidence IEA]