Planococcus versutus strain L10.15 plasmid pPS15-2, complete sequence.
type: Entry
definition: Planococcus versutus strain L10.15 plasmid pPS15-2, complete sequence.
sequence version: NZ_CP016542.2
sequence date: 2023-03-12
sequence: sequence
division: CON
label: NZ_CP016542.2
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN02699419
keyword: RefSeq
source: Planococcus versutus
organism: Planococcus versutus
taxonomy: Bacteria; Bacillota; Bacilli; Bacillales; Planococcaceae; Planococcus.
reference: 1
reference: 2
reference: 3
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP016542.2.\n\nOn Nov 17, 2016 this sequence version replaced NZ_CP016542.1.\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/\nThis genome has a base modification file available.\n\n##Genome-Assembly-Data-START##\nAssembly Method :: HGAP v. 2\nGenome Coverage :: 211.93\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/12/2023 01:15:08\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.4\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,394\nCDSs (total) :: 3,291\nGenes (coding) :: 3,233\nCDSs (with protein) :: 3,233\nGenes (RNA) :: 103\nrRNAs :: 9, 9, 9 (5S, 16S, 23S)\ncomplete rRNAs :: 9, 9, 9 (5S, 16S, 23S)\ntRNAs :: 72\nncRNAs :: 4\nPseudo Genes (total) :: 58\nCDSs (without protein) :: 58\nPseudo Genes (ambiguous residues) :: 0 of 58\nPseudo Genes (frameshifted) :: 39 of 58\nPseudo Genes (incomplete) :: 17 of 58\nPseudo Genes (internal stop) :: 12 of 58\nPseudo Genes (multiple problems) :: 9 of 58\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 9775
topology: circular
so has quality: SO_0000988
location: 1..9775
location: region:1-9775:1
RO_0002162: 1302659

NZ_CP016542
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN02699419
type: BioSample
SIO_000068: biosample

1
title: Direct Submission
author: See-Too, W.S.
journal: Submitted (21-OCT-2016) Institute of Biological Sciences, University of Malaya, University of Malaya, Kuala Lumpur 50603, Malaysia
comments: Sequence update by submitter

2
title: Direct Submission
author: See-Too, W.S.
journal: Submitted (11-JUL-2016) Institute of Biological Sciences, University of Malaya, University of Malaya, Kuala Lumpur 50603, Malaysia

3
title: Direct Submission
author: See-Too, W.S.
journal: Submitted (02-APR-2013) Genetics, University of Malaya, B502 Quorum Sensing Laboratory, Lembah Pantai, Kuala Lumpur 50603, Malaysia

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

position:9775:1
position: 9775
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-9775:1:source
so part of: sequence
organism: Planococcus versutus
mol type: genomic DNA
strain: L10.15
isolation source: soil
type material: type strain of Planococcus versutus
plasmid: pPS15-2
country: Antarctica
collection date: 2009-12

1302659
type: Taxonomy
SIO_000068: taxonomy

I858_RS16705
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16705
old locus tag: I858_016740
so part of: sequence
location: 140..442
location: region:140-442:1
so has part: feature:140-442:1:exon
subclass of: SO_0000010

position:140:1
position: 140
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:442:1
position: 442
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:140-442:1:exon

I858_RS16705
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16705
old locus tag: I858_016740
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: MKKLEDIEEENRSLKEEMRKRDSLFVEALEEMKHQLDQIEEHQQQLVAPIPEEPEIDASEQSSQEEESESEPITPKKDTEVYGQDLEQIKGTVLAETNVT
SIO_010081: I858_RS16705
subclass of: SO_0000673
so part of: I858_RS16705
location: 140..442
location: region:140-442:1
so has part: feature:140-442:1:exon

WP_162273633.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:140-442:1:exon

I858_RS17445
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS17445
old locus tag: I858_016745
pseudo: true
so part of: sequence
location: complement(630..1277)
location: region:630-1277:-1
so has part: feature:630-1277:-1:exon
subclass of: SO_0000010

position:630:-1
position: 630
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1277:-1
position: 1277
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:630-1277:-1:exon

I858_RS17445
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS17445
old locus tag: I858_016745
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017729007.1
note: frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: ABC transporter ATP-binding protein
SIO_010081: I858_RS17445
subclass of: SO_0000673
so part of: I858_RS17445
location: complement(630..1277)
location: region:630-1277:-1
so has part: feature:630-1277:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:630-1277:-1:exon

I858_RS16715
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16715
old locus tag: I858_016750
so part of: sequence
location: complement(1264..2811)
location: region:1264-2811:-1
so has part: feature:1264-2811:-1:exon
subclass of: SO_0000010

position:1264:-1
position: 1264
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2811:-1
position: 2811
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1264-2811:-1:exon

I858_RS16715
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16715
old locus tag: I858_016750
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: MKLLNHVAYEFASWKWFFFILFLLPYSFKNRNFIVAEATVYQLPLNKWDVVLDLLNDPFLMLYLALPLFLFSFSNIVLTERRDDVLMRTGSYTGWIVYTMKKIIPTLIVFFSLCLFVSSLVTVKIPFDFNWSDFSTQSTPGNYRIYQLQQYIDSPFTALFSQVILLFFFFLFIHCLLATVHLFFHSKQGILLVNIVVFSGILVSFKKPPSEWMWLQVLNYIFPAYAYANLGSLLPALFVLGLGISLCFGVVVYFKTHWIEKAKKRLKEHYLVLSFLLMCTLGISSSALDFELMPQTVWDLFYLRFYGVSETGYTLLSYLFFCLVFLGIVFYFQDFMNKQLSSQAYYLLIRYKSMNVWFLNLLKGMAGKVLKFLFFLFVLVLAIGVLQGKSVNMTFSIDVPITVIEMSYHYFVNGFLQIFNYILLAFIVRCIWKEPIYSVLILAVFILGGLPFIHQEVPVPFGLNALGSLTGEANEIYYRRESYWSIFWVSWASSLLFSTRERIYFTEELECHVDR
SIO_010081: I858_RS16715
subclass of: SO_0000673
so part of: I858_RS16715
location: complement(1264..2811)
location: region:1264-2811:-1
so has part: feature:1264-2811:-1:exon

WP_065524953.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1264-2811:-1:exon

I858_RS16720
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16720
old locus tag: I858_016755
so part of: sequence
location: complement(2808..3629)
location: region:2808-3629:-1
so has part: feature:2808-3629:-1:exon
subclass of: SO_0000010

position:2808:-1
position: 2808
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3629:-1
position: 3629
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2808-3629:-1:exon

I858_RS16720
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16720
old locus tag: I858_016755
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: MAYLITKEITNKLTWKFLCAVGILASLPLIYFFIVHRSYEFSTSYDIFTFLLSGILELTFPILVALIYLGSFSLEIDDRFLFYTRSRISIKNYLTLKFSANFFLCFSIFFLFTFTMFLLSFYVLPHYEYIQAGFANAETSFFALNNLTAESYTLSQHTFTQLFAYGPLAYGLFYSTWIGINAALYASIGFLLLLVLNNRFLALALPYIFYLVGSFMLGAIGLRIFRFHYSIFPFGFVQQSFWVPFVPFAFLVFMCVLLFLYIKENAERLDNLL
SIO_010081: I858_RS16720
subclass of: SO_0000673
so part of: I858_RS16720
location: complement(2808..3629)
location: region:2808-3629:-1
so has part: feature:2808-3629:-1:exon

WP_049694581.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2808-3629:-1:exon

I858_RS16725
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16725
old locus tag: I858_016760
so part of: sequence
location: 3822..4205
location: region:3822-4205:1
so has part: feature:3822-4205:1:exon
subclass of: SO_0000010

position:3822:1
position: 3822
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4205:1
position: 4205
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3822-4205:1:exon

I858_RS16725
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16725
old locus tag: I858_016760
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: MKKVLVGVLSASLLLTGGAVTYAGTAWQNNISVYVPNHNGPGGNTKYQTKATSSAQAGLRLHATQGVTLDVRTKGTNGAAAWKRGVKGGNTYSVPSVTVSGNQERLEFSSNIFEGKNVNAILDWRSN
SIO_010081: I858_RS16725
subclass of: SO_0000673
so part of: I858_RS16725
location: 3822..4205
location: region:3822-4205:1
so has part: feature:3822-4205:1:exon

WP_049694580.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3822-4205:1:exon

I858_RS16730
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16730
old locus tag: I858_016765
so part of: sequence
location: 4608..5036
location: region:4608-5036:1
so has part: feature:4608-5036:1:exon
subclass of: SO_0000010

position:4608:1
position: 4608
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5036:1
position: 5036
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4608-5036:1:exon

I858_RS16730
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16730
old locus tag: I858_016765
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: MKDYRIGIALSVGMAILLLVINAEVYQNVMSIALPMILLVLHVVVYKQYLREKRYGVYFGFVLLLGIVVVFSFPALTHQQAETKVSSSYDMEQLEFTTVPVISSWNPLDPKGAYLFSGISRTEGKLVVFVSTKTGEVHQTNP
SIO_010081: I858_RS16730
subclass of: SO_0000673
so part of: I858_RS16730
location: 4608..5036
location: region:4608-5036:1
so has part: feature:4608-5036:1:exon

WP_065524954.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4608-5036:1:exon

I858_RS16735
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16735
old locus tag: I858_016770
so part of: sequence
location: 5059..5622
location: region:5059-5622:1
so has part: feature:5059-5622:1:exon
subclass of: SO_0000010

position:5059:1
position: 5059
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5622:1
position: 5622
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5059-5622:1:exon

I858_RS16735
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16735
old locus tag: I858_016770
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006830820.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: tyrosine-type recombinase/integrase
translation: MTKQQEIKDVQPIRSLERIEDMKWSLKKWCSERDYILFLLGINSGLRVGDLLAIKIHEIQGKKVVSLREGKTGKRRTIHLGNIYDELDAYIRTLEGAEWLFPSRKGNGPITRVQAYRQLQKAAQMVDISVGIGTHTLRKTFGYWHYKQFKDIAELQNILNHAHPQITLRYIGITDEQIESNLKTFRL
SIO_010081: I858_RS16735
subclass of: SO_0000673
so part of: I858_RS16735
location: 5059..5622
location: region:5059-5622:1
so has part: feature:5059-5622:1:exon

WP_065524955.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5059-5622:1:exon

I858_RS16740
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16740
old locus tag: I858_016775
so part of: sequence
location: 6204..7352
location: region:6204-7352:1
so has part: feature:6204-7352:1:exon
subclass of: SO_0000010

position:6204:1
position: 6204
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7352:1
position: 7352
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6204-7352:1:exon

I858_RS16740
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16740
old locus tag: I858_016775
inference: COORDINATES: protein motif:HMM:NF013235.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MDSNYLVTQGNQLIEARQKKPLSTREQKIILTMVSMIEPTDEDFKDYVISVREFHEMLGLEGREHYTQLKKIVEDLMSKVVEIPSKNDGWVMTHWVSRAEYVDGSGTIKLRFAPDLKPYLLQLKTAFTSYKLSNILSLKSGYSIRLYELMKKWQHLGRWEYPVQDLKDKIGIETNTYKQYGHFKSRVLQPAVIELNKKTDLTIEFKEIKKGRSIEKIEFTIRHTPEKEIQLPKDEKKQGKVKKPSKFEQIRARLNEQTDGYRFDTVFFAQLHQGASLIWKEDAEKELEFLIRYVNEEQSVKNPLGFIKAKITSAWDVHEAGGHITFADLQPMKERPTGRQERLPDWFTSRDQPKVAAKPNPEFEKEKEETLKRLAAKKRKDT
SIO_010081: I858_RS16740
subclass of: SO_0000673
so part of: I858_RS16740
location: 6204..7352
location: region:6204-7352:1
so has part: feature:6204-7352:1:exon

WP_049694148.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6204-7352:1:exon

I858_RS16745
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16745
old locus tag: I858_016780
so part of: sequence
location: complement(7776..8000)
location: region:7776-8000:-1
so has part: feature:7776-8000:-1:exon
subclass of: SO_0000010

position:7776:-1
position: 7776
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:8000:-1
position: 8000
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7776-8000:-1:exon

I858_RS16745
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16745
old locus tag: I858_016780
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: MLRKVSISIAIITLILVVLKLINPSFEPFENFIFAWLSLMFFFMGLEYVVEKRKIIGSIFIVGSLFIIFSFFVA
SIO_010081: I858_RS16745
subclass of: SO_0000673
so part of: I858_RS16745
location: complement(7776..8000)
location: region:7776-8000:-1
so has part: feature:7776-8000:-1:exon

WP_049695019.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7776-8000:-1:exon

I858_RS16755
type: Gene
subclass of: SO_0000704
RO_0002162: 1302659
locus tag: I858_RS16755
old locus tag: I858_016790
so part of: sequence
location: complement(9002..9382)
location: region:9002-9382:-1
so has part: feature:9002-9382:-1:exon
subclass of: SO_0000010

position:9002:-1
position: 9002
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:9382:-1
position: 9382
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:9002-9382:-1:exon

I858_RS16755
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1302659
locus tag: I858_RS16755
old locus tag: I858_016790
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006831266.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: lipoprotein
translation: MKKSISLIILLFILSGCGNGSDRYNFSGSSENWDVFYVVDVSNPTEQQQTGTINFRGEESGPETMDYSIKYSGGSSSGIDVPLVKGTANTGRGACQGCAVIQKDEEIEVEITWNGQTEKLTLINKK
SIO_010081: I858_RS16755
subclass of: SO_0000673
so part of: I858_RS16755
location: complement(9002..9382)
location: region:9002-9382:-1
so has part: feature:9002-9382:-1:exon

WP_049695204.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:9002-9382:-1:exon