Photobacterium toruni strain WD2103 plasmid unnamed4, complete sequence.
type: Entry
definition: Photobacterium toruni strain WD2103 plasmid unnamed4, complete sequence.
sequence version: NZ_CP101699.1
sequence date: 2022-08-02
sequence: sequence
division: CON
label: NZ_CP101699.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN29720330
keyword: RefSeq
source: Photobacterium toruni
organism: Photobacterium toruni
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Vibrionales; Vibrionaceae; Photobacterium.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP101699.1.\nBacteria and source DNA available from Department of Aqualife\nMedicine, Chonnam National University, Yeosu, Republic of\nKorea-59626.\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 :: 25-MAR-2021\nAssembly Method :: Unicycler v. V0.4.8\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 07/31/2022 10:22:48\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.2\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA;\n repeat_region\nGenes (total) :: 4,319\nCDSs (total) :: 4,037\nGenes (coding) :: 3,963\nCDSs (with protein) :: 3,963\nGenes (RNA) :: 282\nrRNAs :: 22, 20, 20 (5S, 16S, 23S)\ncomplete rRNAs :: 22, 20, 20 (5S, 16S, 23S)\ntRNAs :: 216\nncRNAs :: 4\nPseudo Genes (total) :: 74\nCDSs (without protein) :: 74\nPseudo Genes (ambiguous residues) :: 0 of 74\nPseudo Genes (frameshifted) :: 18 of 74\nPseudo Genes (incomplete) :: 51 of 74\nPseudo Genes (internal stop) :: 22 of 74\nPseudo Genes (multiple problems) :: 14 of 74\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 1000
topology: circular
so has quality: SO_0000988
location: 1..1000
location: region:1-1000:1
RO_0002162: 1935446

NZ_CP101699
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN29720330
type: BioSample
SIO_000068: biosample

1
title: Photobacterium toruni isolated from olive flounder(Paralichthys olivaceus) in Korea: pathogenicity and completed genome sequences
author: Kwon, Y.H.
author: Kole, S.
author: Jung, S.J.
journal: Unpublished

2
title: Direct Submission
author: Kwon, Y.H.
author: Kole, S.
author: Jung, S.J.
journal: Submitted (21-JUL-2022) Department of Aqualife Medical Sciences, Chonnam National University, 50, Daehak-ro, Yeosu-si, Yeosu 59626, South Korea

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

position:1000:1
position: 1000
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-1000:1:source
so part of: sequence
organism: Photobacterium toruni
mol type: genomic DNA
strain: WD2103
isolation source: Estuarine water
host: Paralichthys olivaceus
plasmid: unnamed4
country: South Korea: Wando
lat lon: 34.316667 N 126.75 E
collection date: 2021-03-25

1935446
type: Taxonomy
SIO_000068: taxonomy

NM620_RS21570
type: Gene
subclass of: SO_0000704
RO_0002162: 1935446
locus tag: NM620_RS21570
so part of: sequence
location: complement(101..170)
location: region:101-170:-1
so has part: feature:101-170:-1:exon
subclass of: SO_0000663

position:101:-1
position: 101
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:170:-1
position: 170
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:101-170:-1:exon

NM620_RS21570
type: Transfer RNA
subclass of: SO_0000253
RO_0002162: 1935446
locus tag: NM620_RS21570
product: tRNA-OTHER
inference: COORDINATES: profile:tRNAscan-SE:2.0.9
note: Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
SIO_010081: NM620_RS21570
subclass of: SO_0000673
so part of: NM620_RS21570
location: complement(101..170)
location: region:101-170:-1
so has part: feature:101-170:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:101-170:-1:exon

NM620_RS21575
type: Gene
subclass of: SO_0000704
RO_0002162: 1935446
locus tag: NM620_RS21575
so part of: sequence
location: complement(344..417)
location: region:344-417:-1
so has part: feature:344-417:-1:exon
subclass of: SO_0000663

position:344:-1
position: 344
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:417:-1
position: 417
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:344-417:-1:exon

NM620_RS21575
type: Transfer RNA
subclass of: SO_0000253
RO_0002162: 1935446
locus tag: NM620_RS21575
product: tRNA-Arg
inference: COORDINATES: profile:tRNAscan-SE:2.0.9
note: Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
anticodon: (pos:complement(384..386),aa:Arg,seq:acg)
SIO_010081: NM620_RS21575
subclass of: SO_0000673
so part of: NM620_RS21575
location: complement(344..417)
location: region:344-417:-1
so has part: feature:344-417:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:344-417:-1:exon

NM620_RS21580
type: Gene
subclass of: SO_0000704
RO_0002162: 1935446
locus tag: NM620_RS21580
so part of: sequence
location: complement(468..545)
location: region:468-545:-1
so has part: feature:468-545:-1:exon
subclass of: SO_0000663

position:468:-1
position: 468
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:545:-1
position: 545
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:468-545:-1:exon

NM620_RS21580
type: Transfer RNA
subclass of: SO_0000253
RO_0002162: 1935446
locus tag: NM620_RS21580
product: tRNA-Arg
inference: COORDINATES: profile:tRNAscan-SE:2.0.9
note: Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
anticodon: (pos:complement(509..511),aa:Arg,seq:acg)
SIO_010081: NM620_RS21580
subclass of: SO_0000673
so part of: NM620_RS21580
location: complement(468..545)
location: region:468-545:-1
so has part: feature:468-545:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:468-545:-1:exon

NM620_RS21585
type: Gene
subclass of: SO_0000704
RO_0002162: 1935446
locus tag: NM620_RS21585
so part of: sequence
location: complement(595..671)
location: region:595-671:-1
so has part: feature:595-671:-1:exon
subclass of: SO_0000663

position:595:-1
position: 595
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:671:-1
position: 671
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:595-671:-1:exon

NM620_RS21585
type: Transfer RNA
subclass of: SO_0000253
RO_0002162: 1935446
locus tag: NM620_RS21585
product: tRNA-Ala
inference: COORDINATES: profile:tRNAscan-SE:2.0.9
note: Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
anticodon: (pos:complement(635..637),aa:Ala,seq:tgc)
SIO_010081: NM620_RS21585
subclass of: SO_0000673
so part of: NM620_RS21585
location: complement(595..671)
location: region:595-671:-1
so has part: feature:595-671:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:595-671:-1:exon

NM620_RS21590
type: Gene
subclass of: SO_0000704
RO_0002162: 1935446
locus tag: NM620_RS21590
so part of: sequence
location: complement(721..797)
location: region:721-797:-1
so has part: feature:721-797:-1:exon
subclass of: SO_0000663

position:721:-1
position: 721
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:797:-1
position: 797
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:721-797:-1:exon

NM620_RS21590
type: Transfer RNA
subclass of: SO_0000253
RO_0002162: 1935446
locus tag: NM620_RS21590
product: tRNA-Arg
inference: COORDINATES: profile:tRNAscan-SE:2.0.9
note: Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
anticodon: (pos:complement(761..763),aa:Arg,seq:acg)
SIO_010081: NM620_RS21590
subclass of: SO_0000673
so part of: NM620_RS21590
location: complement(721..797)
location: region:721-797:-1
so has part: feature:721-797:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:721-797:-1:exon

NM620_RS21595
type: Gene
subclass of: SO_0000704
RO_0002162: 1935446
locus tag: NM620_RS21595
so part of: sequence
location: complement(847..926)
location: region:847-926:-1
so has part: feature:847-926:-1:exon
subclass of: SO_0000663

position:847:-1
position: 847
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:926:-1
position: 926
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:847-926:-1:exon

NM620_RS21595
type: Transfer RNA
subclass of: SO_0000253
RO_0002162: 1935446
locus tag: NM620_RS21595
product: tRNA-Cys
inference: COORDINATES: profile:tRNAscan-SE:2.0.9
note: Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
anticodon: (pos:complement(890..892),aa:Cys,seq:aca)
SIO_010081: NM620_RS21595
subclass of: SO_0000673
so part of: NM620_RS21595
location: complement(847..926)
location: region:847-926:-1
so has part: feature:847-926:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:847-926:-1:exon