Pseudomonas coronafaciens pv. oryzae str. 1_6 plasmid pPor1_6, complete sequence.
Pseudomonas coronafaciens pv. oryzae str. 1_6 (Pseudomonas syringae pv. oryzae str. 1_6)
Pseudomonas coronafaciens pv. oryzae str. 1_6
Bacteria; Pseudomonadota; Gammaproteobacteria; Pseudomonadales; Pseudomonadaceae; Pseudomonas; Pseudomonas coronafaciens.
De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae
A complete genome sequence for Pseudomonas coronafaciens pv. oryzae str. 1_6
Submitted (12-NOV-2019) Plant Sciences, University of Arizona, School of Plant Sciences, Tucson, AZ 857121, USA
Submitted (28-APR-2011) Biology, UNC Chapel Hill, Coker Hall, Chapel Hill, NC 27510, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP046036.1.\nBacteria and source DNA available from David Baltrus.\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##Genome-Assembly-Data-START##\nAssembly Date :: 2019\nAssembly Method :: unicycler v. 0.4.8\nAssembly Name :: UA_Por1_6_2.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 30.0x\nSequencing Technology :: Oxford Nanopore; Illumina NextSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/13/2023 05:38:16\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 5,162\nCDSs (total) :: 5,079\nGenes (coding) :: 4,978\nCDSs (with protein) :: 4,978\nGenes (RNA) :: 83\nrRNAs :: 6, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 5, 5 (5S, 16S, 23S)\ntRNAs :: 63\nncRNAs :: 4\nPseudo Genes (total) :: 101\nCDSs (without protein) :: 101\nPseudo Genes (ambiguous residues) :: 0 of 101\nPseudo Genes (frameshifted) :: 49 of 101\nPseudo Genes (incomplete) :: 73 of 101\nPseudo Genes (internal stop) :: 18 of 101\nPseudo Genes (multiple problems) :: 34 of 101\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_004667954.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_002556085.1
COORDINATES: similar to AA sequence:RefSeq:WP_011282506.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_003436852.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF013561.2
GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017685030.1
COORDINATES: similar to AA sequence:RefSeq:WP_011107003.1
COORDINATES: similar to AA sequence:RefSeq:WP_017685033.1
COORDINATES: similar to AA sequence:RefSeq:WP_003436862.1
COORDINATES: similar to AA sequence:RefSeq:WP_016393908.1
COORDINATES: similar to AA sequence:RefSeq:WP_015268962.1
type II toxin-antitoxin system ChpB family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003432653.1
COORDINATES: similar to AA sequence:RefSeq:WP_011105139.1
COORDINATES: similar to AA sequence:RefSeq:WP_003436873.1
COORDINATES: similar to AA sequence:RefSeq:WP_005763356.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612006.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS3-like element ISPsy29 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_020304597.1
GO:0005524 - ATP binding [Evidence IEA]; GO:0008134 - transcription factor binding [Evidence IEA]
incomplete; partial in the middle of a contig; missing N-terminus and C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
sigma 54-interacting transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_003368169.1
COORDINATES: similar to AA sequence:RefSeq:WP_004415742.1
helix-turn-helix domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_019094704.1
COORDINATES: protein motif:HMM:NF025819.2
COORDINATES: similar to AA sequence:RefSeq:WP_017279408.1
GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_005746122.1
type II toxin-antitoxin system prevent-host-death family antitoxin
COORDINATES: similar to AA sequence:RefSeq:WP_002556077.1
type II toxin-antitoxin system RelE/ParE family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_003436798.1
helix-turn-helix transcriptional regulator
COORDINATES: similar to AA sequence:RefSeq:WP_019648569.1
polyamine ABC transporter substrate-binding protein
COORDINATES: similar to AA sequence:RefSeq:WP_017279418.1
COORDINATES: similar to AA sequence:RefSeq:WP_005782487.1
COORDINATES: similar to AA sequence:RefSeq:WP_004668202.1
transcription termination/antitermination NusG family protein
COORDINATES: similar to AA sequence:RefSeq:WP_016569404.1
COORDINATES: similar to AA sequence:RefSeq:WP_003407112.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_005782479.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569407.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_005782475.1
VirB4 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_004667061.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_003436819.1
COORDINATES: similar to AA sequence:RefSeq:WP_004667984.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569412.1
COORDINATES: similar to AA sequence:RefSeq:WP_007253342.1
COORDINATES: similar to AA sequence:RefSeq:WP_004667049.1
P-type conjugative transfer protein VirB9
COORDINATES: similar to AA sequence:RefSeq:WP_017684943.1
COORDINATES: similar to AA sequence:RefSeq:WP_005782462.1
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011282545.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569418.1
COORDINATES: similar to AA sequence:RefSeq:WP_017684962.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_003436834.1
TrbM/KikA/MpfK family conjugal transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_016569421.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006265 - DNA topological change [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020303948.1
COORDINATES: similar to AA sequence:RefSeq:WP_017279381.1
COORDINATES: similar to AA sequence:RefSeq:WP_003436838.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569425.1
COORDINATES: similar to AA sequence:RefSeq:WP_004667003.1
COORDINATES: similar to AA sequence:RefSeq:WP_010217615.1
COORDINATES: similar to AA sequence:RefSeq:WP_016569428.1
COORDINATES: similar to AA sequence:RefSeq:WP_003407061.1
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.