Verminephrobacter eiseniae EF01-2 plasmid pVEIS01, complete sequence.
Bacteria; Pseudomonadota; Betaproteobacteria; Burkholderiales; Comamonadaceae; Verminephrobacter.
Complete sequence of plasmid pVEIS01 of Verminephrobacter eiseniae EF01-2
Submitted (21-DEC-2006) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
REFSEQ INFORMATION: The reference sequence is identical to\nCP000543.1.\nURL -- http://www.jgi.doe.gov\nJGI Project ID: 4001428\nSource DNA and bacteria available from David Stahl\n(dastahl@u.washington.edu)\nContacts: David Stahl (dastahl@u.washington.edu)\n Paul Richardson (microbes@cuba.jgi-psf.org)\nQuality assurance done by JGI-Stanford\nAnnotation done by JGI-ORNL and JGI-PGF\nFinishing done by JGI-LANL\nNOTE: There is a polymorphism related to the plasmid. The longest\nplasmid is 31194 bp, but some shorter forms are present as well.\nFinished microbial genomes have been curated to close all gaps with\ngreater than 98% coverage of at least two independent clones. Each\nbase pair has a minimum q (quality) value of 30 and the total error\nrate is less than one per 50000.\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##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/28/2022 01:24:08\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) :: 5,332\nCDSs (total) :: 5,273\nGenes (coding) :: 5,082\nCDSs (with protein) :: 5,082\nGenes (RNA) :: 59\nrRNAs :: 3, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 3, 3, 3 (5S, 16S, 23S)\ntRNAs :: 47\nncRNAs :: 3\nPseudo Genes (total) :: 191\nCDSs (without protein) :: 191\nPseudo Genes (ambiguous residues) :: 0 of 191\nPseudo Genes (frameshifted) :: 59 of 191\nPseudo Genes (incomplete) :: 166 of 191\nPseudo Genes (internal stop) :: 17 of 191\nPseudo Genes (multiple problems) :: 48 of 191\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
type strain of Verminephrobacter eiseniae
COORDINATES: similar to AA sequence:RefSeq:WP_014607322.1
Derived by automated computational analysis using gene prediction method: Protein Homology.
COORDINATES: similar to AA sequence:RefSeq:WP_014607323.1
COORDINATES: similar to AA sequence:RefSeq:WP_020852267.1
relaxase/mobilization nuclease domain-containing protein
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
COORDINATES: similar to AA sequence:RefSeq:WP_020852265.1
COORDINATES: similar to AA sequence:RefSeq:WP_020852264.1
type IV secretory system conjugative DNA transfer family protein
COORDINATES: similar to AA sequence:RefSeq:WP_020852263.1
GO:0043684 - type IV secretion system complex [Evidence IEA]
GO:0044097 - secretion by the type IV secretion system [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_020852262.1
COORDINATES: similar to AA sequence:RefSeq:WP_013087974.1
TrbG/VirB9 family P-type conjugative transfer protein
COORDINATES: similar to AA sequence:RefSeq:WP_014607304.1
COORDINATES: similar to AA sequence:RefSeq:WP_020852259.1
COORDINATES: similar to AA sequence:RefSeq:WP_014607306.1
COORDINATES: similar to AA sequence:RefSeq:WP_014607307.1
COORDINATES: similar to AA sequence:RefSeq:WP_020852258.1
COORDINATES: similar to AA sequence:RefSeq:WP_013087959.1
VirB3 family type IV secretion system protein
COORDINATES: similar to AA sequence:RefSeq:WP_014607308.1
COORDINATES: similar to AA sequence:RefSeq:WP_004676270.1
COORDINATES: similar to AA sequence:RefSeq:WP_007553742.1
COORDINATES: protein motif:HMM:NF013258.2
COORDINATES: similar to AA sequence:RefSeq:WP_014607311.1
COORDINATES: similar to AA sequence:RefSeq:WP_014607310.1
COORDINATES: similar to AA sequence:RefSeq:WP_013087965.1
COORDINATES: similar to AA sequence:RefSeq:WP_013087966.1
COORDINATES: similar to AA sequence:RefSeq:WP_011342948.1
frameshifted; 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_011993191.1
COORDINATES: similar to AA sequence:RefSeq:WP_017678220.1
COORDINATES: similar to AA sequence:RefSeq:WP_013124592.1
COORDINATES: similar to AA sequence:RefSeq:WP_011810617.1
COORDINATES: similar to AA sequence:RefSeq:WP_011311442.1
COORDINATES: similar to AA sequence:RefSeq:WP_021138877.1
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: similar to AA sequence:RefSeq:WP_014607318.1
COORDINATES: similar to AA sequence:RefSeq:WP_020852243.1
COORDINATES: similar to AA sequence:RefSeq:WP_020852242.1
COORDINATES: similar to AA sequence:RefSeq:WP_014607321.1
plasmid mobilization relaxosome protein MobC