Citrobacter pasteurii strain FDAARGOS 1424 plasmid unnamed1, complete sequence.
type: Entry
definition: Citrobacter pasteurii strain FDAARGOS 1424 plasmid unnamed1, complete sequence.
sequence version: NZ_CP077261.1
sequence date: 2023-05-07
sequence: sequence
division: CON
label: NZ_CP077261.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN16357566
keyword: RefSeq
source: Citrobacter pasteurii
organism: Citrobacter pasteurii
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Citrobacter.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP077261.1.\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 :: SMRT v. 9.0.0, HGAP v. 4.0, SPAdes v.\n 3.14.1\nGenome Coverage :: 977.80x\nSequencing Technology :: Pacbio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/07/2023 05:35:33\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 4,870\nCDSs (total) :: 4,753\nGenes (coding) :: 4,646\nCDSs (with protein) :: 4,646\nGenes (RNA) :: 117\nrRNAs :: 9, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 9, 8, 8 (5S, 16S, 23S)\ntRNAs :: 84\nncRNAs :: 8\nPseudo Genes (total) :: 107\nCDSs (without protein) :: 107\nPseudo Genes (ambiguous residues) :: 0 of 107\nPseudo Genes (frameshifted) :: 35 of 107\nPseudo Genes (incomplete) :: 75 of 107\nPseudo Genes (internal stop) :: 23 of 107\nPseudo Genes (multiple problems) :: 23 of 107\nPseudo Genes (short protein) :: 1 of 107\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 6827
topology: circular
so has quality: SO_0000988
location: 1..6827
location: region:1-6827:1
RO_0002162: 1563222

NZ_CP077261
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN16357566
type: BioSample
SIO_000068: biosample

1
title: FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS): Supporting development and validation of Infectious Disease Dx tests
author: Sproer, C.
author: Gronow, S.
author: Severitt, S.
author: Schroder, I.
author: Tallon, L.
author: Sadzewicz, L.
author: Zhao, X.
author: Boylan, J.
author: Ott, S.
author: Bowen, H.
author: Vavikolanu, K.
author: Mehta, A.
author: Aluvathingal, J.
author: Nadendla, S.
author: Lowell, S.
author: Myers, T.
author: Yan, Y.
journal: Unpublished

2
title: Direct Submission
author: Sproer, C.
author: Gronow, S.
author: Severitt, S.
author: Schroder, I.
author: Tallon, L.
author: Sadzewicz, L.
author: Zhao, X.
author: Boylan, J.
author: Ott, S.
author: Bowen, H.
author: Vavikolanu, K.
author: Mehta, A.
author: Aluvathingal, J.
author: Nadendla, S.
author: Lowell, S.
author: Myers, T.
author: Yan, Y.
journal: Submitted (17-JUN-2021) Center for Devices and Radiological Health, US Food and Drug Administration, 10903 New Hampshire Avenue, White Oak, MD 20903, USA

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

position:6827:1
position: 6827
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6827:1:source
so part of: sequence
organism: Citrobacter pasteurii
mol type: genomic DNA
strain: FDAARGOS 1424
culture collection: DSM:28879
type material: type strain of Citrobacter pasteurii
plasmid: unnamed1
country: Germany: Braunschweig
collected by: DSMZ

1563222
type: Taxonomy
SIO_000068: taxonomy

I6L54_RS00005
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00005
old locus tag: I6L54_00005
so part of: sequence
location: complement(42..734)
location: region:42-734:-1
so has part: feature:42-734:-1:exon
subclass of: SO_0000010

position:42:-1
position: 42
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:734:-1
position: 734
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:42-734:-1:exon

I6L54_RS00005
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00005
old locus tag: I6L54_00005
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000550475.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF3800 domain-containing protein
translation: MHLLYVDESGTPSDPTLNHFVLSGISVFEKQTHWIEQEMNAIAARFNADDPYERELHGSPMRGGRDGWKKFPFDDRKQAIKDCLTLLTQKHRDIRIFACVVPKGSLGGKDVITESFYQISSRFDMYLSRLHHQGATSRGVAIFDKSSTEKSIQSLARTFKDTGYGYGKLRNFSEVPLFLDSKASRLIQLADLVSYSIFRKFELNDDEFYKIIENSFDYNNGKVHGLYVAH
SIO_010081: I6L54_RS00005
subclass of: SO_0000673
so part of: I6L54_RS00005
location: complement(42..734)
location: region:42-734:-1
so has part: feature:42-734:-1:exon

WP_000550475.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:42-734:-1:exon

I6L54_RS00010
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00010
old locus tag: I6L54_00010
so part of: sequence
location: complement(1439..1654)
location: region:1439-1654:-1
so has part: feature:1439-1654:-1:exon
subclass of: SO_0000010

position:1439:-1
position: 1439
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1654:-1
position: 1654
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1439-1654:-1:exon

I6L54_RS00010
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00010
old locus tag: I6L54_00010
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000137422.1
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: MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENAMLNERVSDLSTQVLSLSEQLRRLSGN
SIO_010081: I6L54_RS00010
subclass of: SO_0000673
so part of: I6L54_RS00010
location: complement(1439..1654)
location: region:1439-1654:-1
so has part: feature:1439-1654:-1:exon

WP_029590204.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1439-1654:-1:exon

I6L54_RS00015
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00015
old locus tag: I6L54_00015
so part of: sequence
location: complement(1661..2152)
location: region:1661-2152:-1
so has part: feature:1661-2152:-1:exon
subclass of: SO_0000010

position:1661:-1
position: 1661
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2152:-1
position: 2152
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1661-2152:-1:exon

I6L54_RS00015
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00015
old locus tag: I6L54_00015
inference: COORDINATES: protein motif:HMM:NF016710.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MbeB family mobilization protein
translation: MSSLLTLAKDLEQQSKAQKQSTGEMLKAAFSEHEQSVRAELSASARRISDAILAHEQSMSEAMEKNRRSVLRTAGRTWLTILMVSALLIGTSGSILWWQGQQITDNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQTEAIPYDGTTWIRLKQE
SIO_010081: I6L54_RS00015
subclass of: SO_0000673
so part of: I6L54_RS00015
location: complement(1661..2152)
location: region:1661-2152:-1
so has part: feature:1661-2152:-1:exon

WP_015060400.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1661-2152:-1:exon

I6L54_RS24180
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS24180
pseudo: true
so part of: sequence
location: complement(<2187..2621)
location: region:2187-2621:-1
so has part: feature:2187-2621:-1:exon
subclass of: SO_0000010

position:2187:-1
position: 2187
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

position:2621:-1
position: 2621
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2187-2621:-1:exon

I6L54_RS24180
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS24180
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: I6L54_RS24180
subclass of: SO_0000673
so part of: I6L54_RS24180
location: complement(<2187..2621)
location: region:2187-2621:-1
so has part: feature:2187-2621:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:2187-2621:-1:exon

I6L54_RS00025
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00025
old locus tag: I6L54_00025
so part of: sequence
location: complement(2830..3153)
location: region:2830-3153:-1
so has part: feature:2830-3153:-1:exon
subclass of: SO_0000010

position:2830:-1
position: 2830
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3153:-1
position: 3153
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2830-3153:-1:exon

I6L54_RS00025
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00025
old locus tag: I6L54_00025
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000957083.1
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: MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTGKLPSLSPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTDDDR
SIO_010081: I6L54_RS00025
subclass of: SO_0000673
so part of: I6L54_RS00025
location: complement(2830..3153)
location: region:2830-3153:-1
so has part: feature:2830-3153:-1:exon

WP_029593203.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2830-3153:-1:exon

I6L54_RS00030
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00030
old locus tag: I6L54_00030
so part of: sequence
location: complement(4152..4826)
location: region:4152-4826:-1
so has part: feature:4152-4826:-1:exon
subclass of: SO_0000010

position:4152:-1
position: 4152
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4826:-1
position: 4826
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4152-4826:-1:exon

I6L54_RS00030
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00030
old locus tag: I6L54_00030
inference: COORDINATES: protein motif:HMM:NF014045.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: NYN domain-containing protein
translation: MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRARESQLIQVKFFTAEIKAKFATRGELAHQAQQAYHRALLQIYGEKLQIIKGYYSERQECAMTFNEGYPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEAEQLVLCTNDSDMIPPIEMIKADRPELKIGIVVPREQDTSRVISSLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPNHW
SIO_010081: I6L54_RS00030
subclass of: SO_0000673
so part of: I6L54_RS00030
location: complement(4152..4826)
location: region:4152-4826:-1
so has part: feature:4152-4826:-1:exon

WP_001259273.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4152-4826:-1:exon

I6L54_RS00035
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00035
old locus tag: I6L54_00035
so part of: sequence
location: 5174..5590
location: region:5174-5590:1
so has part: feature:5174-5590:1:exon
subclass of: SO_0000010

position:5174:1
position: 5174
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5590:1
position: 5590
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5174-5590:1:exon

I6L54_RS00035
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00035
old locus tag: I6L54_00035
inference: COORDINATES: similar to AA sequence:RefSeq:WP_001283459.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helix-turn-helix domain-containing protein
translation: MSDQKNNFDLQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMTPTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSKDNPKYKGRNIYDMSLLVKSLNILTPDLNSKLNEK
SIO_010081: I6L54_RS00035
subclass of: SO_0000673
so part of: I6L54_RS00035
location: 5174..5590
location: region:5174-5590:1
so has part: feature:5174-5590:1:exon

WP_040233155.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5174-5590:1:exon

I6L54_RS00040
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00040
old locus tag: I6L54_00040
so part of: sequence
location: 6039..6275
location: region:6039-6275:1
so has part: feature:6039-6275:1:exon
subclass of: SO_0000010

position:6039:1
position: 6039
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6275:1
position: 6275
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6039-6275:1:exon

I6L54_RS00040
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00040
old locus tag: I6L54_00040
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006535655.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSHPVGKHISKEQEHELNYWLKKRGFKESKENRTSLVWLIESAKLGLGMPSNEHLEHAELDKYFEDNKGLWIDEFETK
SIO_010081: I6L54_RS00040
subclass of: SO_0000673
so part of: I6L54_RS00040
location: 6039..6275
location: region:6039-6275:1
so has part: feature:6039-6275:1:exon

WP_000019317.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6039-6275:1:exon

I6L54_RS00045
type: Gene
subclass of: SO_0000704
RO_0002162: 1563222
locus tag: I6L54_RS00045
old locus tag: I6L54_00045
so part of: sequence
location: 6381..6689
location: region:6381-6689:1
so has part: feature:6381-6689:1:exon
subclass of: SO_0000010

position:6381:1
position: 6381
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6689:1
position: 6689
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6381-6689:1:exon

I6L54_RS00045
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1563222
locus tag: I6L54_RS00045
old locus tag: I6L54_00045
inference: COORDINATES: similar to AA sequence:RefSeq:WP_001707532.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MTEKLKGTASVLHQTKTYEELVQKHSVEVANGLLANAINTALPNAGITSNDVAGFSKVTIALRTGEVDLAKTAEEANADAAAVSANIIAGLKASQKSKDEIK
SIO_010081: I6L54_RS00045
subclass of: SO_0000673
so part of: I6L54_RS00045
location: 6381..6689
location: region:6381-6689:1
so has part: feature:6381-6689:1:exon

WP_012564913.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6381-6689:1:exon