Cylindrospermum stagnale PCC 7417 plasmid pCYLST.03, complete sequence.
Bacteria; Cyanobacteriota; Cyanophyceae; Nostocales; Nostocaceae; Cylindrospermum.
Finished plasmid 3 of genome of Cylindrospermum stagnale PCC 7417
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\nCP003645.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4091456\nSource DNA and Organism available from Cheryl A. Kerfeld\n(CKerfeld@lbl.gov)\n Contacts: Cheryl A. Kerfeld (CKerfeld@lbl.gov)\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 :: Cylindrospermum stagnale PCC 7417\ncollection_date :: 1972\nlat_lon :: 59.332 18.064\ndepth :: Missing\nalt_elev :: Missing\ncountry :: Sweden\nenvironment :: Missing\nnum_replicons :: 4\nref_biomaterial :: PCC 7417\nbiotic_relationship :: Free living\ntrophic_level :: Chemoheterotroph\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 :: Gi05619\nFunding Program :: DOE-GEBA 2009\nGene Calling Method :: Prodigal, GenePRIMP\nIsolation Site :: Soil, greenhouse, Stockholm, Sweden, 1972\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 :: 05/03/2023 01:59:06\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) :: 6,575\nCDSs (total) :: 6,485\nGenes (coding) :: 6,298\nCDSs (with protein) :: 6,298\nGenes (RNA) :: 90\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 74\nncRNAs :: 4\nPseudo Genes (total) :: 187\nCDSs (without protein) :: 187\nPseudo Genes (ambiguous residues) :: 0 of 187\nPseudo Genes (frameshifted) :: 60 of 187\nPseudo Genes (incomplete) :: 131 of 187\nPseudo Genes (internal stop) :: 38 of 187\nPseudo Genes (multiple problems) :: 35 of 187\nCRISPR Arrays :: 10\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
Soil, greenhouse, Stockholm, Sweden, 1972
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_015217882.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_012599403.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017314234.1
COORDINATES: protein motif:HMM:NF041667.1
GO:0031412 - gas vesicle organization [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_013651460.1
COORDINATES: protein motif:HMM:NF024367.2
COORDINATES: similar to AA sequence:RefSeq:WP_011316435.1
COORDINATES: similar to AA sequence:RefSeq:WP_017746878.1
helix-turn-helix transcriptional regulator