Vibrio tasmaniensis strain LMG 20012 plasmid p1, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Vibrionales; Vibrionaceae; Vibrio.
Vibrio Clade 3.0: New Vibrionaceae Evolutionary Units Using Genome-Based Approach
DOI:10.1007/s00284-021-02725-0 Publication Status: Online-Only
Submitted (05-JAN-2022) Contact:Tomoo Sawabe Hokkaido University, Faculty of Fisheries Sciences; 3-1-1 Minato-cho, Hakodate, Hokkaido 041-8611, Japan
REFSEQ INFORMATION: The reference sequence is identical to\nAP025512.1.\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 Method :: Unicycler v. 0.4.8\nGenome Coverage :: 125x\nSequencing Technology :: Illumina MiSeq; Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 09/29/2022 11:09:52\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,445\nCDSs (total) :: 4,262\nGenes (coding) :: 4,193\nCDSs (with protein) :: 4,193\nGenes (RNA) :: 183\nrRNAs :: 16, 15, 15 (5S, 16S, 23S)\ncomplete rRNAs :: 16, 15, 15 (5S, 16S, 23S)\ntRNAs :: 133\nncRNAs :: 4\nPseudo Genes (total) :: 69\nCDSs (without protein) :: 69\nPseudo Genes (ambiguous residues) :: 0 of 69\nPseudo Genes (frameshifted) :: 20 of 69\nPseudo Genes (incomplete) :: 49 of 69\nPseudo Genes (internal stop) :: 13 of 69\nPseudo Genes (multiple problems) :: 12 of 69\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_076611769.1
GO:0004803 - transposase activity [Evidence IEA]
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_019769832.1
internal stop; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_006712894.1
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: similar to AA sequence:RefSeq:WP_011147726.1
incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
Rpn family recombination-promoting nuclease/putative transposase
COORDINATES: similar to AA sequence:RefSeq:WP_076612096.1
COORDINATES: similar to AA sequence:RefSeq:WP_017097181.1
COORDINATES: similar to AA sequence:RefSeq:WP_016768695.1
COORDINATES: similar to AA sequence:RefSeq:WP_017818801.1
COORDINATES: similar to AA sequence:RefSeq:WP_001907982.1
COORDINATES: similar to AA sequence:RefSeq:WP_017100245.1
COORDINATES: protein motif:HMM:NF013793.2
COORDINATES: protein motif:HMM:NF016629.2
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016767832.1
COORDINATES: similar to AA sequence:RefSeq:WP_019442029.1
COORDINATES: similar to AA sequence:RefSeq:WP_011176793.1
incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_008185558.1
COORDINATES: similar to AA sequence:RefSeq:WP_016799706.1
COORDINATES: protein motif:HMM:NF033579.1
COORDINATES: similar to AA sequence:RefSeq:WP_006712091.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0000150 - DNA strand exchange activity [Evidence IEA]
GO:0006310 - DNA recombination [Evidence IEA]
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_017188823.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611744.1
internal stop; 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_010448340.1
GO:0019867 - outer membrane [Evidence IEA]
GO:0015343 - siderophore transmembrane transporter activity [Evidence IEA]
GO:0015891 - siderophore transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_011074415.1
COORDINATES: similar to AA sequence:RefSeq:WP_020196117.1
GO:0004784 - superoxide dismutase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_009697911.1
ankyrin repeat domain-containing protein
COORDINATES: protein motif:HMM:NF024997.2
DDE-type integrase/transposase/recombinase
COORDINATES: similar to AA sequence:RefSeq:WP_017110295.1
COORDINATES: similar to AA sequence:RefSeq:WP_012472779.1
frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF012245.2
COORDINATES: similar to AA sequence:RefSeq:WP_076612150.1
COORDINATES: similar to AA sequence:RefSeq:WP_005352287.1
heme-binding beta-barrel domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_016792151.1
COORDINATES: similar to AA sequence:RefSeq:WP_005531371.1
COORDINATES: similar to AA sequence:RefSeq:WP_016796889.1
COORDINATES: similar to AA sequence:RefSeq:WP_017103184.1
zonular occludens toxin domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017067264.1
COORDINATES: similar to AA sequence:RefSeq:WP_017067262.1
COORDINATES: similar to AA sequence:RefSeq:WP_016786877.1
COORDINATES: similar to AA sequence:RefSeq:WP_016789826.1
COORDINATES: similar to AA sequence:RefSeq:WP_017089183.1
COORDINATES: similar to AA sequence:RefSeq:WP_012842284.1
COORDINATES: similar to AA sequence:RefSeq:WP_017188064.1
COORDINATES: similar to AA sequence:RefSeq:WP_017191276.1
type IV conjugative transfer system pilin TraA
COORDINATES: similar to AA sequence:RefSeq:WP_017817632.1
type IV conjugative transfer system protein TraL
COORDINATES: similar to AA sequence:RefSeq:WP_016800090.1
type IV conjugative transfer system protein TraE
COORDINATES: similar to AA sequence:RefSeq:WP_017096434.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_017191043.1
COORDINATES: similar to AA sequence:RefSeq:WP_016800093.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_017096872.1
COORDINATES: similar to AA sequence:RefSeq:WP_016800094.1
COORDINATES: similar to AA sequence:RefSeq:WP_017818175.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_017188057.1
COORDINATES: similar to AA sequence:RefSeq:WP_017103572.1
conjugal transfer pilus assembly protein TraU
COORDINATES: similar to AA sequence:RefSeq:WP_017103571.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: similar to AA sequence:RefSeq:WP_017818171.1
type-F conjugative transfer system mating-pair stabilization protein TraN
COORDINATES: similar to AA sequence:RefSeq:WP_017818168.1
COORDINATES: similar to AA sequence:RefSeq:WP_017818842.1
COORDINATES: similar to AA sequence:RefSeq:WP_017818843.1
type-F conjugative transfer system pilin assembly protein TraF
COORDINATES: similar to AA sequence:RefSeq:WP_008219446.1
type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB
COORDINATES: similar to AA sequence:RefSeq:WP_016800101.1
COORDINATES: similar to AA sequence:RefSeq:WP_016800102.1
conjugal transfer mating-pair stabilization protein TraG
COORDINATES: similar to AA sequence:RefSeq:WP_008219452.1
COORDINATES: similar to AA sequence:RefSeq:WP_017817613.1
COORDINATES: similar to AA sequence:RefSeq:WP_008219463.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: similar to AA sequence:RefSeq:WP_017191098.1
COORDINATES: similar to AA sequence:RefSeq:WP_017191380.1
COORDINATES: similar to AA sequence:RefSeq:WP_017188059.1
COORDINATES: similar to AA sequence:RefSeq:WP_017096751.1
COORDINATES: similar to AA sequence:RefSeq:WP_017085511.1
conjugative transfer relaxase/helicase TraI
COORDINATES: similar to AA sequence:RefSeq:WP_017085512.1
COORDINATES: similar to AA sequence:RefSeq:WP_017191371.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017191370.1
type I restriction endonuclease subunit M
COORDINATES: similar to AA sequence:RefSeq:WP_017098486.1
COORDINATES: similar to AA sequence:RefSeq:WP_017060516.1
COORDINATES: similar to AA sequence:RefSeq:WP_016800122.1
COORDINATES: similar to AA sequence:RefSeq:WP_016790680.1
COORDINATES: similar to AA sequence:RefSeq:WP_012548923.1
COORDINATES: similar to AA sequence:RefSeq:WP_017191295.1
COORDINATES: similar to AA sequence:RefSeq:WP_008217393.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: protein motif:HMM:NF033527.1
COORDINATES: similar to AA sequence:RefSeq:WP_015068652.1
COORDINATES: similar to AA sequence:RefSeq:WP_086558351.1
COORDINATES: similar to AA sequence:RefSeq:WP_076612362.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0004803 - transposase activity [Evidence IEA]
GO:0006313 - transposition, DNA-mediated [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.
COORDINATES: protein motif:HMM:NF037144.2
COORDINATES: similar to AA sequence:RefSeq:WP_009696936.1
GO:0009279 - cell outer membrane [Evidence IEA]
GO:0015288 - porin activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017091114.1
COORDINATES: similar to AA sequence:RefSeq:WP_019350630.1
COORDINATES: similar to AA sequence:RefSeq:WP_020699819.1
COORDINATES: similar to AA sequence:RefSeq:WP_016794762.1
GO:0003677 - DNA binding [Evidence IEA]; GO:0003916 - DNA topoisomerase activity [Evidence IEA]
GO:0006270 - DNA replication initiation [Evidence IEA]
replication initiation factor domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017103180.1
COORDINATES: similar to AA sequence:RefSeq:WP_011041068.1
COORDINATES: similar to AA sequence:RefSeq:WP_017191285.1
COORDINATES: similar to AA sequence:RefSeq:WP_017791703.1
COORDINATES: similar to AA sequence:RefSeq:WP_012979570.1
COORDINATES: similar to AA sequence:RefSeq:WP_017191282.1
COORDINATES: similar to AA sequence:RefSeq:WP_016790683.1
COORDINATES: similar to AA sequence:RefSeq:WP_017449269.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_016797441.1
COORDINATES: similar to AA sequence:RefSeq:WP_076611746.1