Candidatus Pantoea carbekii strain US plasmid pBMSBPS4, complete sequence.
type: Entry
definition: Candidatus Pantoea carbekii strain US plasmid pBMSBPS4, complete sequence.
sequence version: NZ_CP010911.1
sequence date: 2022-12-13
sequence: sequence
division: CON
label: NZ_CP010911.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN03371649
keyword: RefSeq
source: Candidatus Pantoea carbekii (primary bacterial symbiont of Brown Marmorated Stink Bug)
organism: Candidatus Pantoea carbekii
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Erwiniaceae; Pantoea.
reference: 1
references: 25587021
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP010911.1.\nSource DNA is available from Zakee L. Sabree, sabree.8@osu.edu,\nDepartment of Evolution, Ecology and Organismal Biology, The Ohio\nState University, 318 W. 12th. Avenue Room 300, Columbus, Ohio,\nUSA.\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 :: BWA v. 0.6.1\nGenome Coverage :: 610X\nSequencing Technology :: Sanger dideoxy sequencing; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/12/2022 20:12:02\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) :: 879\nCDSs (total) :: 829\nGenes (coding) :: 802\nCDSs (with protein) :: 802\nGenes (RNA) :: 50\nrRNAs :: 2, 3, 3 (5S, 16S, 23S)\ncomplete rRNAs :: 2, 3, 3 (5S, 16S, 23S)\ntRNAs :: 39\nncRNAs :: 3\nPseudo Genes (total) :: 27\nCDSs (without protein) :: 27\nPseudo Genes (ambiguous residues) :: 0 of 27\nPseudo Genes (frameshifted) :: 9 of 27\nPseudo Genes (incomplete) :: 17 of 27\nPseudo Genes (internal stop) :: 11 of 27\nPseudo Genes (multiple problems) :: 9 of 27\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 7593
topology: circular
so has quality: SO_0000988
location: 1..7593
location: region:1-7593:1
RO_0002162: 1235990

NZ_CP010911
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN03371649
type: BioSample
SIO_000068: biosample

1
title: Habitat visualization and genomic analysis of 'Candidatus Pantoea carbekii,' the primary symbiont of the brown marmorated stink bug
author: Kenyon, L.J.
author: Meulia, T.
author: Sabree, Z.L.
journal: Genome Biol Evol
volume: 7
issue: 2
pages: 620-635
year: 2015
pubmed: 25587021
comments: Publication Status: Online-Only

25587021
type: PubMed
SIO_000068: pubmed

2
title: Direct Submission
author: Kenyon, L.J.
author: Meulia, T.
author: Sabree, Z.L.
journal: Submitted (02-FEB-2015) The Ohio State University, Evolution, Ecology, and Organismal Biology, 318 West 12th Avenue, Columbus, OH 43210, USA

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

position:7593:1
position: 7593
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7593:1:source
so part of: sequence
organism: Candidatus Pantoea carbekii
mol type: genomic DNA
strain: US
isolation source: distal midgut region V4
host: Halyomorpha halys
plasmid: pBMSBPS4
country: USA: Ohio,Wooster
lat lon: 40.7793 N 81.9250 W
collection date: 2014-02
common: primary bacterial symbiont of Brown Marmorated Stink Bug

1235990
type: Taxonomy
SIO_000068: taxonomy

BMSBPS_RS04325
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04325
old locus tag: BMSBPS_p0026
so part of: sequence
location: complement(1..897)
location: region:1-897:-1
so has part: feature:1-897:-1:exon
subclass of: SO_0000010

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

position:897:-1
position: 897
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-897:-1:exon

BMSBPS_RS04325
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04325
old locus tag: BMSBPS_p0026
inference: COORDINATES: similar to AA sequence:RefSeq:WP_001076427.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: RepB family plasmid replication initiator protein
translation: MFNKNKILHLFDVLRVSHTGKKLSPTAHNTVQPVALMRLGLFVPTLKRKGSKVKNLSIDASKELAGLELAQAEGYTNILISGPRLSMETDFKVWAAIIISFSQYGEKTNSIELPFTQFASFAGYPDKEKTTVLRNRISHALIRLRSTTISLSSKNKNKHAITGLLERGQYDIQADTIRLQADESLWELYRIDNQVLLHMIILRKLANKGSAQALYTFIESLPQKPIPLSFSRIKKRLILTSSDPQQNRIVKKAIKDLQTVGYLDATVIKKGKEWYVNIHNRDPHCKIIDPVCLIKNFF
SIO_010081: BMSBPS_RS04325
subclass of: SO_0000673
so part of: BMSBPS_RS04325
location: complement(1..897)
location: region:1-897:-1
so has part: feature:1-897:-1:exon

WP_046201247.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-897:-1:exon

BMSBPS_RS04330
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04330
old locus tag: BMSBPS_p0027
so part of: sequence
location: complement(1900..2451)
location: region:1900-2451:-1
so has part: feature:1900-2451:-1:exon
subclass of: SO_0000010

position:1900:-1
position: 1900
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2451:-1
position: 2451
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1900-2451:-1:exon

BMSBPS_RS04330
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04330
old locus tag: BMSBPS_p0027
EC number: 3.1.3.-
inference: COORDINATES: protein motif:HMM:NF012521.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: histidine phosphatase family protein
translation: MIRELILIRHAHSEWQAGITQHKNSHLTSIGIKQASELSKTLAQYADISNFHILSSPLHRSVETARIALPIHLFAEVIFDHQFQEATFHVRSQLILPKKFYPDVRKKNSEKYLLFKENIKSSLGQILSNYDRIMIFTHSGVIKTVLRIHCGSDAFCTEIDNCSITHFIHKNNIWLVQRVNYVF
SIO_010081: BMSBPS_RS04330
subclass of: SO_0000673
so part of: BMSBPS_RS04330
location: complement(1900..2451)
location: region:1900-2451:-1
so has part: feature:1900-2451:-1:exon

WP_046201248.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1900-2451:-1:exon

BMSBPS_RS04580
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04580
old locus tag: BMSBPS_p0028
so part of: sequence
location: complement(3049..3360)
location: region:3049-3360:-1
so has part: feature:3049-3360:-1:exon
subclass of: SO_0000010

position:3049:-1
position: 3049
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3360:-1
position: 3360
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3049-3360:-1:exon

BMSBPS_RS04580
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04580
old locus tag: BMSBPS_p0028
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MILRGYRSTFYVLIDGYDVLRCSMDRCTVFDFRSLNDMQNPVMWKYFREIELSLYPRISNKIKNDVRIIRIVEILRDSLISYFNTCVIYDIKYQRGMRLLGKY
SIO_010081: BMSBPS_RS04580
subclass of: SO_0000673
so part of: BMSBPS_RS04580
location: complement(3049..3360)
location: region:3049-3360:-1
so has part: feature:3049-3360:-1:exon

WP_052719895.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3049-3360:-1:exon

BMSBPS_RS04585
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04585
old locus tag: BMSBPS_p0029
so part of: sequence
location: complement(3438..3875)
location: region:3438-3875:-1
so has part: feature:3438-3875:-1:exon
subclass of: SO_0000010

position:3438:-1
position: 3438
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3875:-1
position: 3875
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3438-3875:-1:exon

BMSBPS_RS04585
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04585
old locus tag: BMSBPS_p0029
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MNLIVDTEGSIHEIYREYNIFRQMAVKIVADHIGDQQYYKWLDRISSDMSVRYPSIQFKERDQVRINPPLNTAVYYDTENYDILPTGALLRTSCSKLTHAFCSFKMPEDTTGNRLDRRHVFEGEEKKLFKIILLVLLLLILLKNS
SIO_010081: BMSBPS_RS04585
subclass of: SO_0000673
so part of: BMSBPS_RS04585
location: complement(3438..3875)
location: region:3438-3875:-1
so has part: feature:3438-3875:-1:exon

WP_052719896.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3438-3875:-1:exon

BMSBPS_RS04340
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04340
old locus tag: BMSBPS_p0030
so part of: sequence
location: complement(3885..4499)
location: region:3885-4499:-1
so has part: feature:3885-4499:-1:exon
subclass of: SO_0000010

position:3885:-1
position: 3885
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4499:-1
position: 4499
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3885-4499:-1:exon

BMSBPS_RS04340
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04340
old locus tag: BMSBPS_p0030
inference: COORDINATES: ab initio prediction:GeneMarkS-2+
note: Derived by automated computational analysis using gene prediction method: GeneMarkS-2+.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MPKIIKEILIDENYLKEISSNSYRHVNHFSKISLINDFHQDHCRLTLHIWKPPFTENEVSQELIHDHRFSFSSHVLCGKQIHEIFTESSKKSITKIKLQKYKYLPSKTSNIHNCFFEKYVYLDKIDEKIVNCGHIYNMKNELIHRIVFPNNNEPIISFMVRGPRKRNFSHTYNTFYPRSNTISNVPMYSSAELKKLLTYTLDKM
SIO_010081: BMSBPS_RS04340
subclass of: SO_0000673
so part of: BMSBPS_RS04340
location: complement(3885..4499)
location: region:3885-4499:-1
so has part: feature:3885-4499:-1:exon

WP_148424738.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3885-4499:-1:exon

BMSBPS_RS04345
type: Gene
subclass of: SO_0000704
RO_0002162: 1235990
locus tag: BMSBPS_RS04345
old locus tag: BMSBPS_p0031
so part of: sequence
location: complement(6318..6836)
location: region:6318-6836:-1
so has part: feature:6318-6836:-1:exon
subclass of: SO_0000010

position:6318:-1
position: 6318
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6836:-1
position: 6836
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6318-6836:-1:exon

BMSBPS_RS04345
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1235990
locus tag: BMSBPS_RS04345
old locus tag: BMSBPS_p0031
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014354197.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: phospholipase D family protein
translation: MKVKYLFLVIVLFLLPNISCSANIIVGFSPYGNAQKVVLMAIHDAHEHIDIAAYGFTSKLISFALLEAHQKGIKIRVIGDKKANHGKYTAITFLRNKGISVRLNGQYAIHHNKFIIVDNKSVQTGSFNYSQNAAYKNAENVVYIKNEPEIARLYIEEFERLWNEAQTIQPKY
SIO_010081: BMSBPS_RS04345
subclass of: SO_0000673
so part of: BMSBPS_RS04345
location: complement(6318..6836)
location: region:6318-6836:-1
so has part: feature:6318-6836:-1:exon

WP_235375466.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6318-6836:-1:exon