Citrobacter sedlakii strain 3347689II plasmid p3347089II_2, complete sequence.
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Citrobacter; Citrobacter freundii complex.
Polycolonization with MDR bacteria in a patient transferred from intensive care unit
Submitted (02-FEB-2021) Institute for Infectious Diseases, University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
REFSEQ INFORMATION: The reference sequence is identical to\nCP071072.1.\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 Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 170x\nSequencing Technology :: Illumina NovaSeq; Oxford Nanopore MiniION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/07/2022 04:55:58\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\nGenes (total) :: 4,755\nCDSs (total) :: 4,639\nGenes (coding) :: 4,535\nCDSs (with protein) :: 4,535\nGenes (RNA) :: 116\nrRNAs :: 8, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 7, 7 (5S, 16S, 23S)\ntRNAs :: 86\nncRNAs :: 8\nPseudo Genes (total) :: 104\nCDSs (without protein) :: 104\nPseudo Genes (ambiguous residues) :: 0 of 104\nPseudo Genes (frameshifted) :: 35 of 104\nPseudo Genes (incomplete) :: 71 of 104\nPseudo Genes (internal stop) :: 21 of 104\nPseudo Genes (multiple problems) :: 17 of 104\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.
COORDINATES: ab initio prediction:GeneMarkS-2+
Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
extended-spectrum class A beta-lactamase SHV-12
COORDINATES: similar to AA sequence:RefSeq:YP_005221000.1
GO:0004803 - transposase activity [Evidence IEA]
Derived by automated computational analysis using gene prediction method: Protein Homology.
IS6-like element IS26 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001513488.1
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_000339857.1
COORDINATES: similar to AA sequence:RefSeq:WP_004118283.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229618.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229619.1
COORDINATES: similar to AA sequence:RefSeq:WP_000015958.1
COORDINATES: similar to AA sequence:RefSeq:WP_016243889.1
COORDINATES: similar to AA sequence:RefSeq:WP_000493378.1
COORDINATES: similar to AA sequence:RefSeq:WP_004213073.1
type II toxin-antitoxin system VapB family antitoxin
COORDINATES: similar to AA sequence:RefSeq:YP_005229630.1
type II toxin-antitoxin system VapC family toxin
COORDINATES: similar to AA sequence:RefSeq:WP_076611389.1
frameshifted; incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS3-like element ISEc15 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_000907654.1
COORDINATES: similar to AA sequence:RefSeq:WP_011711650.1
GO:0006313 - transposition, DNA-mediated [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:NP_460027.1
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:YP_005220840.1
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_001138082.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229775.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229774.1
GO:0007059 - chromosome segregation [Evidence IEA]; GO:0000910 - cytokinesis [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:YP_005229773.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229772.1
translesion error-prone DNA polymerase V autoproteolytic subunit
COORDINATES: similar to AA sequence:RefSeq:YP_005226014.1
GO:0003964 - RNA-directed DNA polymerase activity [Evidence IEA]
GO:0000373 - Group II intron splicing [Evidence IEA]
internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
group II intron reverse transcriptase/maturase
COORDINATES: similar to AA sequence:RefSeq:WP_086558268.1
programmed frameshift; Derived by automated computational analysis using gene prediction method: Protein Homology.
IS1-like element IS1X3 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_012561120.1
COORDINATES: similar to AA sequence:RefSeq:WP_000679427.1
GO:0022857 - transmembrane transporter activity [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_048608579.1
frameshifted; Derived by automated computational analysis using gene prediction method: Protein Homology.
ANT(3'')-Ia family aminoglycoside nucleotidyltransferase AadA1
COORDINATES: similar to AA sequence:RefSeq:WP_001355915.1
trimethoprim-resistant dihydrofolate reductase DfrA1
COORDINATES: similar to AA sequence:RefSeq:YP_005221021.1
COORDINATES: similar to AA sequence:RefSeq:WP_009602860.1
COORDINATES: similar to AA sequence:RefSeq:WP_019334760.1
AbrB/MazE/SpoVT family DNA-binding domain-containing protein
COORDINATES: similar to AA sequence:RefSeq:WP_017172645.1
COORDINATES: similar to AA sequence:RefSeq:WP_003159187.1
COORDINATES: similar to AA sequence:RefSeq:WP_003159191.1
fluoroquinolone-acetylating aminoglycoside 6'-N-acetyltransferase AAC(6')-Ib-cr5
COORDINATES: similar to AA sequence:RefSeq:WP_032491311.1
oxacillin-hydrolyzing class D beta-lactamase OXA-1
COORDINATES: similar to AA sequence:RefSeq:WP_002075262.1
type B-3 chloramphenicol O-acetyltransferase CatB3
QacE family quaternary ammonium compound efflux SMR transporter
COORDINATES: similar to AA sequence:RefSeq:WP_000259031.1
sulfonamide-resistant dihydropteroate synthase Sul1
COORDINATES: similar to AA sequence:RefSeq:YP_005229637.1
IS110-like element IS5075 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_004896675.1
GO:0015109 - chromate transmembrane transporter activity [Evidence IEA]
GO:0015703 - chromate transport [Evidence IEA]
COORDINATES: similar to AA sequence:RefSeq:WP_000130000.1
COORDINATES: similar to AA sequence:RefSeq:YP_005229646.1
COORDINATES: similar to AA sequence:RefSeq:WP_001389365.1
IS6-like element IS6100 family transposase
COORDINATES: similar to AA sequence:RefSeq:WP_001137892.1
macrolide-binding transcriptional repressor MphR(A)
COORDINATES: similar to AA sequence:RefSeq:WP_000004159.1
macrolide resistance MFS transporter Mrx(A)
COORDINATES: similar to AA sequence:RefSeq:WP_000219391.1
Mph(A) family macrolide 2'-phosphotransferase
COORDINATES: similar to AA sequence:RefSeq:YP_005226821.1
DeoR/GlpR family DNA-binding transcription regulator