Citrobacter koseri ATCC BAA-895 plasmid pCKO2, complete sequence.
type: Entry
definition: Citrobacter koseri ATCC BAA-895 plasmid pCKO2, complete sequence.
sequence version: NC_009794.1
sequence date: 2023-04-23
sequence: sequence
division: CON
label: NC_009794.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN02603912
keyword: RefSeq
source: Citrobacter koseri ATCC BAA-895
organism: Citrobacter koseri ATCC BAA-895
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Citrobacter.
reference: 1
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP000824.1.\nCitrobacter (diversus) koseri--Citrobacter cells are isolated from\nwater, sewage, soils, and food, as well as from the feces of man\nand other animals, where they may be normal inhabitants. They can\nbe found in urine, sputum, and other clinical specimens. They can\nsometimes be opportunistic pathogens particularly in\nimmunocompromised patients in hospitals or in infants (Pepperell et\nal., Antimicrob Agents Chemother. 2002 Nov;46(11):3555-60. and\nreferences therein).\n\nThe strain of Citrobacter koseri being sequenced, strain CDC\n4225-83, was isolated in 1983 in Maryland, where it caused neonatal\nmeningitis. It was provided by Caroline Mohr and Melissa Campbell\nof CDC. The strain is available from the American Type Culture\nCollection as ATCC BAA-895 or from the Salmonella Genetic Stock\nCentre as SGSC4696. The genome was sequenced to 8X coverage, using\nplasmid and fosmid libraries and was finished to an error rate of\nless than 1 per 10,000 bases. Automated annotation was performed\nand manual annotation will continue in the labs of Michael\nMcClelland and Kenneth Sanderson. The National Institute of Allergy\nand Infectious Diseases (NIAID), National Institutes of Health\n(NIH) has funded this project.\n\nCoding sequences below are predicted using GeneMark v3.3 and\nGlimmer2 v2.13.Intergenic regions not spanned by GeneMark and\nGlimmer2 were blasted against NCBI's non-redundant (NR) database\nand predictions generated based on protein alignments. RNA genes\nwere determined usingtRNAscan-SE 1.23 or Rfam v8.0. This sequence\nwas finished as follows unless otherwise noted: all regions were\ndouble stranded, sequenced with an alternate chemistries or covered\nby high quality data (i.e., phred quality >=30); an attempt was\nmade to resolve all sequencing problems, such as compressions and\nrepeats; all regions were covered by sequence from more than one\nm13 subclone.\nThe annotation was ad…

sequence
subclass of: SO_0000155
sequence length: 5601
topology: circular
so has quality: SO_0000988
location: 1..5601
location: region:1-5601:1
RO_0002162: 290338

NC_009794
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN02603912
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: McClelland, M.
author: Sanderson, E.K.
author: Porwollik, S.
author: Spieth, J.
author: Clifton, W.S.
author: Latreille, P.
author: Courtney, L.
author: Wang, C.
author: Pepin, K.
author: Bhonagiri, V.
author: Nash, W.
author: Johnson, M.
author: Thiruvilangam, P.
author: Wilson, R.
journal: Submitted (29-AUG-2007) Genetics, Genome Sequencing Center, 4444 Forest Park Parkway, St. Louis, MO 63108, USA

position:1:1
position: 1
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5601:1
position: 5601
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-5601:1:source
so part of: sequence
organism: Citrobacter koseri ATCC BAA-895
mol type: genomic DNA
strain: ATCC BAA-895
plasmid: pCKO2

BAA-895
type: ATCC
SIO_000068: atcc

290338
type: Taxonomy
SIO_000068: taxonomy

CKO_RS23535
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS23535
old locus tag: CKO_pCKO2p07156
so part of: sequence
location: 3..179
location: region:3-179:1
so has part: feature:3-179:1:exon
subclass of: SO_0000010

64123168
type: Gene
SIO_000068: ncbigene

position:3:1
position: 3
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:179:1
position: 179
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3-179:1:exon

CKO_RS23535
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS23535
old locus tag: CKO_pCKO2p07156
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004197757.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MQKPKKKPLVVKKRSWHPAVMANLMRQAQEEDYRREQMAELERSARSHFADIGGEDGG
SIO_010081: CKO_RS23535
subclass of: SO_0000673
so part of: CKO_RS23535
location: 3..179
location: region:3-179:1
so has part: feature:3-179:1:exon

WP_004197757.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3-179:1:exon

CKO_RS21960
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS21960
old locus tag: CKO_pCKO2p07157
so part of: sequence
location: 169..513
location: region:169-513:1
so has part: feature:169-513:1:exon
subclass of: SO_0000010

45138599
type: Gene
SIO_000068: ncbigene

position:169:1
position: 169
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:513:1
position: 513
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:169-513:1:exon

CKO_RS21960
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS21960
old locus tag: CKO_pCKO2p07157
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006122514.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MobC family plasmid mobilization relaxosome protein
translation: MAVKRTRFLGIRVTDGEYQQLLERCNGRQLAVWMRETCLDTRPARSLRLPSIDPVLLRQLAGMGNNLNQIARKINGGQWSGADRVQVVAALMAIDAGLERLRHAVLEKGADDDR
SIO_010081: CKO_RS21960
subclass of: SO_0000673
so part of: CKO_RS21960
location: 169..513
location: region:169-513:1
so has part: feature:169-513:1:exon

WP_004197764.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:169-513:1:exon

CKO_RS23680
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS23680
pseudo: true
so part of: sequence
location: 722..>1156
location: region:722-1156:1
so has part: feature:722-1156:1:exon
subclass of: SO_0000010

71692165
type: Gene
SIO_000068: ncbigene

position:722:1
position: 722
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1156:1
position: 1156
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:722-1156:1:exon

CKO_RS23680
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS23680
inference: COORDINATES: protein motif:HMM:NF015397.2
note: incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: relaxase/mobilization nuclease domain-containing protein
SIO_010081: CKO_RS23680
subclass of: SO_0000673
so part of: CKO_RS23680
location: 722..>1156
location: region:722-1156:1
so has part: feature:722-1156:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:722-1156:1:exon

CKO_RS23205
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS23205
so part of: sequence
location: 1191..1700
location: region:1191-1700:1
so has part: feature:1191-1700:1:exon
subclass of: SO_0000010

45138660
type: Gene
SIO_000068: ncbigene

position:1191:1
position: 1191
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1700:1
position: 1700
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1191-1700:1:exon

CKO_RS23205
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS23205
inference: COORDINATES: similar to AA sequence:RefSeq:WP_020325392.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MbeB family mobilization protein
translation: MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESGKRISAAIRAHEQGMSAAMQSNRLSVMRMVGRTWLTITMVSGLLFASLSGVLWYQGSLIASNLAEIDRQNAALSKLNAKTWGVTYLEDSNGRFLVLPKGTAVDRTQSWTVGNGLSKQNALRLVKE
SIO_010081: CKO_RS23205
subclass of: SO_0000673
so part of: CKO_RS23205
location: 1191..1700
location: region:1191-1700:1
so has part: feature:1191-1700:1:exon

WP_024131073.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1191-1700:1:exon

CKO_RS23210
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS23210
so part of: sequence
location: 1707..1919
location: region:1707-1919:1
so has part: feature:1707-1919:1:exon
subclass of: SO_0000010

45138661
type: Gene
SIO_000068: ncbigene

position:1707:1
position: 1707
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1919:1
position: 1919
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1707-1919:1:exon

CKO_RS23210
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS23210
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000137423.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MbeD family mobilization/exclusion protein
translation: MTELEKQLLSALEQLQQDYSKRLDEWESAFGEWRKMSGLMQRENAALSERVTRLSQQVERLSGQLQRLSR
SIO_010081: CKO_RS23210
subclass of: SO_0000673
so part of: CKO_RS23210
location: 1707..1919
location: region:1707-1919:1
so has part: feature:1707-1919:1:exon

WP_021527181.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1707-1919:1:exon

CKO_RS23710
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS23710
so part of: sequence
location: complement(2296..2424)
location: region:2296-2424:-1
so has part: feature:2296-2424:-1:exon
subclass of: SO_0000010

80258105
type: Gene
SIO_000068: ncbigene

position:2296:-1
position: 2296
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2424:-1
position: 2424
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2296-2424:-1:exon

CKO_RS23710
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS23710
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000523570.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MGLKPGPKRIADSTGEPDKRQRDNKKTPGNTDKLKPSKSSKK
SIO_010081: CKO_RS23710
subclass of: SO_0000673
so part of: CKO_RS23710
location: complement(2296..2424)
location: region:2296-2424:-1
so has part: feature:2296-2424:-1:exon

WP_000523570.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2296-2424:-1:exon

CKO_RS22930
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS22930
old locus tag: CKO_pCKO2p07160
so part of: sequence
location: 2587..2811
location: region:2587-2811:1
so has part: feature:2587-2811:1:exon
subclass of: SO_0000010

45138643
type: Gene
SIO_000068: ncbigene

position:2587:1
position: 2587
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2811:1
position: 2811
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2587-2811:1:exon

CKO_RS22930
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS22930
old locus tag: CKO_pCKO2p07160
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000879771.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF6290 family protein
translation: MLAIRLSDEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYLSAETAARVRRGDEAVHSSEDVRKSLGLDD
SIO_010081: CKO_RS22930
subclass of: SO_0000673
so part of: CKO_RS22930
location: 2587..2811
location: region:2587-2811:1
so has part: feature:2587-2811:1:exon

WP_000879771.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2587-2811:1:exon

CKO_RS21980
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS21980
old locus tag: CKO_pCKO2p07161
so part of: sequence
location: 2795..3061
location: region:2795-3061:1
so has part: feature:2795-3061:1:exon
subclass of: SO_0000010

45138600
type: Gene
SIO_000068: ncbigene

position:2795:1
position: 2795
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3061:1
position: 3061
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2795-3061:1:exon

CKO_RS21980
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS21980
old locus tag: CKO_pCKO2p07161
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000262326.1
GO function: GO:0008657 - DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) inhibitor activity [Evidence IEA]; GO:0042803 - protein homodimerization activity [Evidence IEA]
GO process: GO:0030541 - plasmid partitioning [Evidence IEA]; GO:0051290 - protein heterotetramerization [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system RelE/ParE family toxin
translation: MVWTINYSDRALKSLRKMDKQNARRIVDFMSLRIAVAADPRQSGKPLKGELGEFWRYRVGDYRVLCEIRDDELVILAATIGHRREVYD
SIO_010081: CKO_RS21980
subclass of: SO_0000673
so part of: CKO_RS21980
location: 2795..3061
location: region:2795-3061:1
so has part: feature:2795-3061:1:exon

WP_004197762.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2795-3061:1:exon

CKO_RS21985
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS21985
old locus tag: CKO_pCKO2p07163
so part of: sequence
location: complement(3131..3481)
location: region:3131-3481:-1
so has part: feature:3131-3481:-1:exon
subclass of: SO_0000010

45138601
type: Gene
SIO_000068: ncbigene

position:3131:-1
position: 3131
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3481:-1
position: 3481
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3131-3481:-1:exon

CKO_RS21985
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS21985
old locus tag: CKO_pCKO2p07163
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004197756.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MYWLIAFLAFIFPGRSFADGYTAYYRCNGTQEASLTVKDNKLSMVVGLSKFNRQLDTYRFKEKGIEVVMQRAASDDNSEAIMSFIMPDVNNMTLLVKNNGYIIVKTTCWLTKTDKQ
SIO_010081: CKO_RS21985
subclass of: SO_0000673
so part of: CKO_RS21985
location: complement(3131..3481)
location: region:3131-3481:-1
so has part: feature:3131-3481:-1:exon

WP_004197756.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3131-3481:-1:exon

CKO_RS21990
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS21990
old locus tag: CKO_pCKO2p07164
so part of: sequence
location: complement(3547..4092)
location: region:3547-4092:-1
so has part: feature:3547-4092:-1:exon
subclass of: SO_0000010

45138602
type: Gene
SIO_000068: ncbigene

position:3547:-1
position: 3547
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4092:-1
position: 4092
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3547-4092:-1:exon

CKO_RS21990
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS21990
old locus tag: CKO_pCKO2p07164
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004197758.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MFFKRHLTEKEIYKAALPIVRLQGRVNTSLRFLSKYSDVNKNGLIALHLNLLHFISYNIHGVESLKITQAGINKAVQQSPHADEIKNIAQAIGRKGPEYIEGLIRNPWGKKNDNPLIFIMSIEESIKETLNSGYMLYRVAPITEGEAAAFMDVLKQLLLFEDNFRLFGRDLVYKIEKLKIR
SIO_010081: CKO_RS21990
subclass of: SO_0000673
so part of: CKO_RS21990
location: complement(3547..4092)
location: region:3547-4092:-1
so has part: feature:3547-4092:-1:exon

WP_004197758.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3547-4092:-1:exon

CKO_RS21995
type: Gene
subclass of: SO_0000704
RO_0002162: 290338
locus tag: CKO_RS21995
old locus tag: CKO_pCKO2p07165
so part of: sequence
location: complement(4118..4483)
location: region:4118-4483:-1
so has part: feature:4118-4483:-1:exon
subclass of: SO_0000010

45138603
type: Gene
SIO_000068: ncbigene

position:4118:-1
position: 4118
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4483:-1
position: 4483
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4118-4483:-1:exon

CKO_RS21995
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 290338
locus tag: CKO_RS21995
old locus tag: CKO_pCKO2p07165
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004198370.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MRNKKRNSEGGGVMRERTNIMLDIGLKQSLQRLSNKTKMSLSDLINQRLSGSLSVEERIGEKPEWMRNLDPYLANHFSNIELPLPSPLKEYQEKMDEIDSIINEMMVLKEYFRAKFYDEIK
SIO_010081: CKO_RS21995
subclass of: SO_0000673
so part of: CKO_RS21995
location: complement(4118..4483)
location: region:4118-4483:-1
so has part: feature:4118-4483:-1:exon

WP_226331160.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4118-4483:-1:exon