Aliivibrio salmonicida LFI1238 plasmid pVSAL840, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Vibrionales; Vibrionaceae; Aliivibrio.
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay
Submitted (26-JUN-2008) Hjerde E., Department of Molecular Biotechnology, University of Tromso, Breivika, 9037 Tromso, NORWAY
REFSEQ INFORMATION: The reference sequence is identical to\nFM178381.1.\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-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/24/2022 02:13:44\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) :: 4,501\nCDSs (total) :: 4,356\nGenes (coding) :: 4,112\nCDSs (with protein) :: 4,112\nGenes (RNA) :: 145\nrRNAs :: 13, 12, 12 (5S, 16S, 23S)\ncomplete rRNAs :: 13, 12, 12 (5S, 16S, 23S)\ntRNAs :: 104\nncRNAs :: 4\nPseudo Genes (total) :: 244\nCDSs (without protein) :: 244\nPseudo Genes (ambiguous residues) :: 0 of 244\nPseudo Genes (frameshifted) :: 101 of 244\nPseudo Genes (incomplete) :: 124 of 244\nPseudo Genes (internal stop) :: 38 of 244\nPseudo Genes (multiple problems) :: 17 of 244\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: similar to AA sequence:RefSeq:WP_017187955.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_016800088.1
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_012197971.1
type IV conjugative transfer system protein TraE
COORDINATES: similar to AA sequence:RefSeq:WP_011081575.1
type-F conjugative transfer system secretin TraK
COORDINATES: similar to AA sequence:RefSeq:WP_011081576.1
COORDINATES: similar to AA sequence:RefSeq:WP_004744672.1
type IV conjugative transfer system lipoprotein TraV
COORDINATES: similar to AA sequence:RefSeq:WP_017188040.1
COORDINATES: protein motif:HMM:NF021213.2
type-F conjugative transfer system protein TrbI
COORDINATES: similar to AA sequence:RefSeq:WP_005306925.1
type-F conjugative transfer system protein TraW
COORDINATES: similar to AA sequence:RefSeq:WP_004744668.1
conjugal transfer pilus assembly protein TraU
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: protein motif:HMM:TIGR02742.1
type-F conjugative transfer system pilin assembly protein TrbC
COORDINATES: protein motif:HMM:NF009017.0
type-F conjugative transfer system mating-pair stabilization protein TraN
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_006087388.1
type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB
COORDINATES: similar to AA sequence:RefSeq:WP_014615241.1
COORDINATES: protein motif:HMM:NF010295.2
conjugal transfer mating-pair stabilization protein TraG
COORDINATES: similar to AA sequence:RefSeq:WP_016799657.1
type IV conjugative transfer system coupling protein TraD
COORDINATES: protein motif:HMM:TIGR02760.1
conjugative transfer relaxase/helicase TraI
COORDINATES: similar to AA sequence:RefSeq:WP_016800121.1
lytic transglycosylase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_011979516.1
zincin-like metallopeptidase domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_012550650.1
COORDINATES: similar to AA sequence:RefSeq:WP_005481749.1
COORDINATES: similar to AA sequence:RefSeq:WP_016786731.1
COORDINATES: similar to AA sequence:RefSeq:WP_011263961.1
COORDINATES: similar to AA sequence:RefSeq:WP_011263964.1
COORDINATES: similar to AA sequence:RefSeq:WP_006087368.1
COORDINATES: similar to AA sequence:RefSeq:WP_001618166.1
COORDINATES: similar to AA sequence:RefSeq:WP_004748728.1
Hcp family type VI secretion system effector
COORDINATES: similar to AA sequence:RefSeq:WP_012550059.1
GO:0003674 - molecular_function [Evidence IEA]
GO:0033103 - protein secretion by the type VI secretion system [Evidence IEA]
type VI secretion system tip protein VgrG
COORDINATES: similar to AA sequence:RefSeq:WP_012550060.1
COORDINATES: protein motif:HMM:NF013630.2
COORDINATES: similar to AA sequence:RefSeq:WP_009841963.1
SUMF1/EgtB/PvdO family nonheme iron enzyme
COORDINATES: protein motif:HMM:NF025001.2
COORDINATES: protein motif:HMM:TIGR00180.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
ParB/RepB/Spo0J family partition protein
COORDINATES: similar to AA sequence:RefSeq:WP_017085672.1
COORDINATES: similar to AA sequence:RefSeq:WP_012552314.1
COORDINATES: similar to AA sequence:RefSeq:WP_012552308.1
COORDINATES: similar to AA sequence:RefSeq:WP_012548883.1
GO:0004803 - transposase activity [Evidence IEA]
IS91-like element ISVsa21 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_012548884.1
COORDINATES: similar to AA sequence:RefSeq:WP_012548941.1
COORDINATES: similar to AA sequence:RefSeq:WP_017019111.1
COORDINATES: similar to AA sequence:RefSeq:WP_009696743.1
COORDINATES: similar to AA sequence:RefSeq:WP_012548890.1
IS6-like element ISVsa4 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_005497247.1
type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family
COORDINATES: similar to AA sequence:RefSeq:WP_011218237.1
COORDINATES: protein motif:HMM:NF013126.2
glycoside hydrolase family 3 N-terminal domain-containing protein
COORDINATES: protein motif:HMM:NF019313.2
antiviral RADAR system adenosine triphosphatase RdrA
antiviral RADAR system adenosine deaminase RdrB
COORDINATES: protein motif:HMM:NF039446.1
COORDINATES: protein motif:HMM:NF039436.1
COORDINATES: protein motif:HMM:NF040097.1
COORDINATES: protein motif:HMM:NF039772.1
GTPase-associated system all-helical protein GASH
COORDINATES: similar to AA sequence:RefSeq:WP_017376171.1
COORDINATES: protein motif:HMM:NF012376.2
GO:0016787 - hydrolase activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_017110295.1
COORDINATES: similar to AA sequence:RefSeq:WP_012552315.1
COORDINATES: similar to AA sequence:RefSeq:WP_011263975.1
COORDINATES: similar to AA sequence:RefSeq:WP_004748407.1