Planococcus glaciei strain CNCTC7660 plasmid unnamed1.
type: Entry
definition: Planococcus glaciei strain CNCTC7660 plasmid unnamed1.
sequence version: NZ_CP051178.1
sequence date: 2023-05-06
sequence: sequence
division: CON
label: NZ_CP051178.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN14558179
keyword: RefSeq
source: Planococcus glaciei
organism: Planococcus glaciei
taxonomy: Bacteria; Bacillota; Bacilli; Bacillales; Planococcaceae; Planococcus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP051178.1.\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 Date :: 02-APR-2020\nAssembly Method :: CANU v. DEC-2018; Pilon v. APR-2020\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 40.0x\nSequencing Technology :: Oxford Nanopore; Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 05/06/2023 02:57:34\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) :: 4,022\nCDSs (total) :: 3,917\nGenes (coding) :: 3,873\nCDSs (with protein) :: 3,873\nGenes (RNA) :: 105\nrRNAs :: 9, 9, 9 (5S, 16S, 23S)\ncomplete rRNAs :: 9, 9, 9 (5S, 16S, 23S)\ntRNAs :: 74\nncRNAs :: 4\nPseudo Genes (total) :: 44\nCDSs (without protein) :: 44\nPseudo Genes (ambiguous residues) :: 0 of 44\nPseudo Genes (frameshifted) :: 22 of 44\nPseudo Genes (incomplete) :: 18 of 44\nPseudo Genes (internal stop) :: 10 of 44\nPseudo Genes (multiple problems) :: 6 of 44\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 8634
topology: linear
so has quality: SO_0000987
location: 1..8634
location: region:1-8634:1
RO_0002162: 459472

NZ_CP051178
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN14558179
type: BioSample
SIO_000068: biosample

1
title: Isolation of Planomicrobium glaciei
author: Malisova, L.
author: Safrankova, R.
author: Jakubu, V.
author: Spanelova, P.
journal: Unpublished

2
title: Direct Submission
author: Pajer, P.
author: Broz, P.
journal: Submitted (08-APR-2020) CEM, NIPH, Prague, Srobarova 48, Prague 10042, Czech Republic

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

position:8634:1
position: 8634
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8634:1:source
so part of: sequence
organism: Planococcus glaciei
mol type: genomic DNA
strain: CNCTC7660
isolation source: acute appendicitis
host: Homo sapiens
plasmid: unnamed1
country: Czech Republic
lat lon: 50.24 N 12.88 E
collection date: 2018
collected by: NIPH Prague

459472
type: Taxonomy
SIO_000068: taxonomy

HF394_RS19255
type: Gene
subclass of: SO_0000704
RO_0002162: 459472
locus tag: HF394_RS19255
old locus tag: HF394_19265
so part of: sequence
location: complement(1254..2423)
location: region:1254-2423:-1
so has part: feature:1254-2423:-1:exon
subclass of: SO_0000010

position:1254:-1
position: 1254
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2423:-1
position: 2423
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1254-2423:-1:exon

HF394_RS19255
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 459472
locus tag: HF394_RS19255
old locus tag: HF394_19265
inference: COORDINATES: protein motif:HMM:NF013235.2
GO function: GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO process: GO:0006270 - DNA replication initiation [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MQENYLVAQGNDLIEARHTNPLSVREQKIVLTMVSMIQPTDEDFKDYRISIKEFSEMLGLEGSAKYTELKEITKDLMSKSIEIPRADGGWLFANWVSSAEYQKGEGIIALSFSPKLKPYLLQLKNAFTSYRLSNILSLKSSYSIRLYELMKKWQHLGSWTCSIENFKEKVGVESEKYPRYANLKARVLNPAIEEVNEKTDLFISIKEIKKGRSVEKIEFIIRHAPEKEIQVPRLEKETVPTKEFNETDELRARLNKLADGYQFDATFFTQLHQGASLIWKDETEKELELLIRYVNEEKTVKNPLGFIKSKITSAWEISEAGGKITFADLQPVKERWAGREEKLPEWFATKDEPYEPAEPDPELEKMKEKMLKKWANKKEKHAEKDVPES
SIO_010081: HF394_RS19255
subclass of: SO_0000673
so part of: HF394_RS19255
location: complement(1254..2423)
location: region:1254-2423:-1
so has part: feature:1254-2423:-1:exon

WP_051413773.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1254-2423:-1:exon

HF394_RS19260
type: Gene
subclass of: SO_0000704
RO_0002162: 459472
locus tag: HF394_RS19260
old locus tag: HF394_19270
so part of: sequence
location: complement(3018..3581)
location: region:3018-3581:-1
so has part: feature:3018-3581:-1:exon
subclass of: SO_0000010

position:3018:-1
position: 3018
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3581:-1
position: 3581
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3018-3581:-1:exon

HF394_RS19260
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 459472
locus tag: HF394_RS19260
old locus tag: HF394_19270
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006830820.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MTKQTEIKDVQPIRSLDRIEDMKWSLKKWCGERDYILFLLGINSGLRVGDLLNIKTSEIRGKQVVSLKEGKTGKRRTIHLGNIYDELNAYIDTLDDAEWLFPSRKGQNPITRVQAYRQLNKAAQMADMPDGIGTHTLRKTFGYWHYKQFKDIAELQNILNHAHPQITLRYIGITDEQIESNLKTFRL
SIO_010081: HF394_RS19260
subclass of: SO_0000673
so part of: HF394_RS19260
location: complement(3018..3581)
location: region:3018-3581:-1
so has part: feature:3018-3581:-1:exon

WP_036805483.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3018-3581:-1:exon

HF394_RS19265
type: Gene
subclass of: SO_0000704
RO_0002162: 459472
locus tag: HF394_RS19265
old locus tag: HF394_19275
so part of: sequence
location: complement(3578..3763)
location: region:3578-3763:-1
so has part: feature:3578-3763:-1:exon
subclass of: SO_0000010

position:3578:-1
position: 3578
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3763:-1
position: 3763
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3578-3763:-1:exon

HF394_RS19265
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 459472
locus tag: HF394_RS19265
old locus tag: HF394_19275
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: MSMRIRYLIVFAVCFGATFFLPIDFRNIFFRFLFAVFMTGLTWLVQPTEGAKQPKDKRSQT
SIO_010081: HF394_RS19265
subclass of: SO_0000673
so part of: HF394_RS19265
location: complement(3578..3763)
location: region:3578-3763:-1
so has part: feature:3578-3763:-1:exon

WP_036805477.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3578-3763:-1:exon

HF394_RS19270
type: Gene
subclass of: SO_0000704
RO_0002162: 459472
locus tag: HF394_RS19270
old locus tag: HF394_19280
so part of: sequence
location: complement(4095..4553)
location: region:4095-4553:-1
so has part: feature:4095-4553:-1:exon
subclass of: SO_0000010

position:4095:-1
position: 4095
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4553:-1
position: 4553
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4095-4553:-1:exon

HF394_RS19270
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 459472
locus tag: HF394_RS19270
old locus tag: HF394_19280
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: MKEAVLMSHNVEFQYKYIPNEKWASGHFSMGNHKFEFFCSYMFNNPLEELLSAVYQIVPNLAPFPRKKIDFIMFDLPIEYRWEFELIDEKHVSISIYEKDSDLKTDLIFRDNCHLDDLLRAIVHGIGSDTKLRSTESIERVYNQFKLHLKSH
SIO_010081: HF394_RS19270
subclass of: SO_0000673
so part of: HF394_RS19270
location: complement(4095..4553)
location: region:4095-4553:-1
so has part: feature:4095-4553:-1:exon

WP_131544274.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4095-4553:-1:exon

HF394_RS19275
type: Gene
subclass of: SO_0000704
RO_0002162: 459472
locus tag: HF394_RS19275
old locus tag: HF394_19285
so part of: sequence
location: complement(4630..5184)
location: region:4630-5184:-1
so has part: feature:4630-5184:-1:exon
subclass of: SO_0000010

position:4630:-1
position: 4630
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5184:-1
position: 5184
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4630-5184:-1:exon

HF394_RS19275
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 459472
locus tag: HF394_RS19275
old locus tag: HF394_19285
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: MLTPSEVSAKLKIQPSTLRKYSALLEQEGIQFQRTHKNARLYTDSEYIAIEGIIAAVHSGKKSLEEAVIEASKALKKNVSVAPRERDSDDIAAATLNEVKQLRIQLQQQEERQKERDIMFVEVLEKMQRKIDVLEDQQKQLLAPVPEEPELEAPKSSSQQPKSEPETVMPKKDTRGLWARIWNK
SIO_010081: HF394_RS19275
subclass of: SO_0000673
so part of: HF394_RS19275
location: complement(4630..5184)
location: region:4630-5184:-1
so has part: feature:4630-5184:-1:exon

WP_036805473.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4630-5184:-1:exon

HF394_RS19280
type: Gene
subclass of: SO_0000704
RO_0002162: 459472
locus tag: HF394_RS19280
old locus tag: HF394_19290
so part of: sequence
location: complement(6692..7861)
location: region:6692-7861:-1
so has part: feature:6692-7861:-1:exon
subclass of: SO_0000010

position:6692:-1
position: 6692
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:7861:-1
position: 7861
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6692-7861:-1:exon

HF394_RS19280
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 459472
locus tag: HF394_RS19280
old locus tag: HF394_19290
inference: COORDINATES: protein motif:HMM:NF013235.2
GO function: GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO process: GO:0006270 - DNA replication initiation [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MQENYLVAQGNDLIEARHTNPLSVREQKIVLTMVSMIQPTDEDFKDYRISIKEFSEMLGLEGSAKYTELKEITKDLMSKSIEIPRADGGWLFANWVSSAEYQKGEGIIALSFSPKLKPYLLQLKNAFTSYRLSNILSLKSSYSIRLYELMKKWQHLGSWTCSIENFKEKVGVESEKYPRYANLKARVLNPAIEEVNEKTDLFISIKEIKKGRSVEKIEFIIRHAPEKEIQVPRLEKETVPTKEFNETDELRARLNKLADGYQFDATFFTQLHQGASLIWKDETEKELELLIRYVNEEKTVKNPLGFIKSKITSAWEISEAGGKITFADLQPVKERWAGREEKLPEWFATKDEPYEPAEPDPELEKMKEKMLKKWANKKEKHAEKDVPES
SIO_010081: HF394_RS19280
subclass of: SO_0000673
so part of: HF394_RS19280
location: complement(6692..7861)
location: region:6692-7861:-1
so has part: feature:6692-7861:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:6692-7861:-1:exon

HF394_RS19285
type: Gene
subclass of: SO_0000704
RO_0002162: 459472
locus tag: HF394_RS19285
old locus tag: HF394_19295
pseudo: true
so part of: sequence
location: complement(<8461..8634)
location: region:8461-8634:-1
so has part: feature:8461-8634:-1:exon
subclass of: SO_0000010

position:8461:-1
position: 8461
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

position:8634:-1
position: 8634
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:8461-8634:-1:exon

HF394_RS19285
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 459472
locus tag: HF394_RS19285
old locus tag: HF394_19295
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006830820.1
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: site-specific integrase
SIO_010081: HF394_RS19285
subclass of: SO_0000673
so part of: HF394_RS19285
location: complement(<8461..8634)
location: region:8461-8634:-1
so has part: feature:8461-8634:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:8461-8634:-1:exon