Zymobacter palmae strain IAM14233 plasmid pZB5060, complete sequence.
type: Entry
definition: Zymobacter palmae strain IAM14233 plasmid pZB5060, complete sequence.
sequence version: NZ_AP018934.1
sequence date: 2022-12-25
sequence: sequence
division: CON
label: NZ_AP018934.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMD00136070
keyword: RefSeq
source: Zymobacter palmae
organism: Zymobacter palmae
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Oceanospirillales; Halomonadaceae; Zymobacter group; Zymobacter.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nAP018934.1.\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 :: PGA (Paracel Genome Assembler)\nGenome Coverage :: 7.7X\nSequencing Technology :: Sanger\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/25/2022 03:42:21\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) :: 2,684\nCDSs (total) :: 2,581\nGenes (coding) :: 2,570\nCDSs (with protein) :: 2,570\nGenes (RNA) :: 103\nrRNAs :: 8, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 8, 8 (5S, 16S, 23S)\ntRNAs :: 75\nncRNAs :: 4\nPseudo Genes (total) :: 11\nCDSs (without protein) :: 11\nPseudo Genes (ambiguous residues) :: 0 of 11\nPseudo Genes (frameshifted) :: 3 of 11\nPseudo Genes (incomplete) :: 6 of 11\nPseudo Genes (internal stop) :: 2 of 11\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 5060
topology: circular
so has quality: SO_0000988
location: 1..5060
location: region:1-5060:1
RO_0002162: 33074

NZ_AP018934
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMD00136070
type: BioSample
SIO_000068: biosample

1
title: Zymobacter palmae IAM14233 (=T109) whole genome analysis
author: Yanase, H.
journal: Unpublished

2
title: Direct Submission
author: Yanase, H.
journal: Submitted (11-SEP-2018) Contact:Hideshi Yanase Tottori University, Chemistry and Biotechnology; Koyamacho-Minami, Tottori, Tottori 680-8552, Japan

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

position:5060:1
position: 5060
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-5060:1:source
so part of: sequence
organism: Zymobacter palmae
mol type: genomic DNA
strain: IAM14233
isolation source: palm sap
culture collection: IAM:14233
type material: type strain of Zymobacter palmae
plasmid: pZB5060
country: Japan:Okinawa

33074
type: Taxonomy
SIO_000068: taxonomy

ZBT109_RS13450
type: Gene
subclass of: SO_0000704
RO_0002162: 33074
locus tag: ZBT109_RS13450
old locus tag: ZBT109_p001
so part of: sequence
location: 1..489
location: region:1-489:1
so has part: feature:1-489:1:exon
subclass of: SO_0000010

position:489:1
position: 489
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-489:1:exon

ZBT109_RS13450
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 33074
locus tag: ZBT109_RS13450
old locus tag: ZBT109_p001
inference: COORDINATES: similar to AA sequence:RefSeq:WP_007247495.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type VI secretion system tube protein Hcp
translation: MSFDAYLKIEAIPGEALDSNHKDWIELTDFHYGVMQAVSGTASSAGGATVGGASCPDFFIEKHLDRASPKLFEACASGQHFKSMVIHVNRAGGDQQKYMEIKLEEVIISGLNANRGGEFPTESVTLNYGRIAIKYIQQNRATGKGAGAIAGGWDRIANKKFA
SIO_010081: ZBT109_RS13450
subclass of: SO_0000673
so part of: ZBT109_RS13450
location: 1..489
location: region:1-489:1
so has part: feature:1-489:1:exon

WP_027705633.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-489:1:exon

ZBT109_RS13455
type: Gene
subclass of: SO_0000704
RO_0002162: 33074
locus tag: ZBT109_RS13455
old locus tag: ZBT109_p002
so part of: sequence
location: complement(1584..1772)
location: region:1584-1772:-1
so has part: feature:1584-1772:-1:exon
subclass of: SO_0000010

position:1584:-1
position: 1584
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1772:-1
position: 1772
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1584-1772:-1:exon

ZBT109_RS13455
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 33074
locus tag: ZBT109_RS13455
old locus tag: ZBT109_p002
inference: COORDINATES: similar to AA sequence:RefSeq:WP_000165992.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: Rop family plasmid primer RNA-binding protein
translation: MGKKEKSALNVAKFIKSQTLILLDKLNELDDDDAANACEKLHDDAEALHEVLANKWASEGEN
SIO_010081: ZBT109_RS13455
subclass of: SO_0000673
so part of: ZBT109_RS13455
location: complement(1584..1772)
location: region:1584-1772:-1
so has part: feature:1584-1772:-1:exon

WP_027705634.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1584-1772:-1:exon

ZBT109_RS13460
type: Gene
subclass of: SO_0000704
RO_0002162: 33074
gene: nadS
locus tag: ZBT109_RS13460
old locus tag: ZBT109_p003
so part of: sequence
location: complement(1957..2241)
location: region:1957-2241:-1
so has part: feature:1957-2241:-1:exon
subclass of: SO_0000010

position:1957:-1
position: 1957
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2241:-1
position: 2241
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1957-2241:-1:exon

ZBT109_RS13460
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 33074
gene: nadS
locus tag: ZBT109_RS13460
old locus tag: ZBT109_p003
inference: COORDINATES: similar to AA sequence:RefSeq:WP_018877550.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: NadS family protein
translation: MSIFDDLKSSLEEAVEIKKGRQAATRVTRYEVADVKAIRAQIKVSQAEFALAMGTSVDTIKSWESKRRNPTGLAAKVLSAIQKNPAFYQELASH
SIO_010081: ZBT109_RS13460
subclass of: SO_0000673
so part of: ZBT109_RS13460
location: complement(1957..2241)
location: region:1957-2241:-1
so has part: feature:1957-2241:-1:exon

WP_027705635.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1957-2241:-1:exon

ZBT109_RS13465
type: Gene
subclass of: SO_0000704
RO_0002162: 33074
locus tag: ZBT109_RS13465
old locus tag: ZBT109_p004
so part of: sequence
location: complement(2241..2573)
location: region:2241-2573:-1
so has part: feature:2241-2573:-1:exon
subclass of: SO_0000010

position:2573:-1
position: 2573
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2241-2573:-1:exon

ZBT109_RS13465
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 33074
locus tag: ZBT109_RS13465
old locus tag: ZBT109_p004
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011918370.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system RelE/ParE family toxin
translation: MGHAIEFIETSLFTRSIHQIATDDELRALQNDLIANPTKGDLIQGTGGLRKVRMATRGQGKSGSVRVIYFLSTAETIYLVLAYAKSEKESLTQAEKASLKQLMQQLKGES
SIO_010081: ZBT109_RS13465
subclass of: SO_0000673
so part of: ZBT109_RS13465
location: complement(2241..2573)
location: region:2241-2573:-1
so has part: feature:2241-2573:-1:exon

WP_027705636.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2241-2573:-1:exon

ZBT109_RS13670
type: Gene
subclass of: SO_0000704
RO_0002162: 33074
locus tag: ZBT109_RS13670
so part of: sequence
location: 3282..3737
location: region:3282-3737:1
so has part: feature:3282-3737:1:exon
subclass of: SO_0000010

position:3282:1
position: 3282
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3737:1
position: 3737
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3282-3737:1:exon

ZBT109_RS13670
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 33074
locus tag: ZBT109_RS13670
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: MFDSVVCGSESLKAAHDKARNHEFPSETHKDFFKKSAFYEVKTPQESESCLASKKQNGKRIKYGMPFEKKAFSFRKQCREKNDKHSASKAEKKTTSTLPQKQKRKRIKTGYVAFNLLGQGMSTSHKCGPNASQSLCSQAADPWGGHPAFFP
SIO_010081: ZBT109_RS13670
subclass of: SO_0000673
so part of: ZBT109_RS13670
location: 3282..3737
location: region:3282-3737:1
so has part: feature:3282-3737:1:exon

WP_145984537.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3282-3737:1:exon

ZBT109_RS13475
type: Gene
subclass of: SO_0000704
RO_0002162: 33074
locus tag: ZBT109_RS13475
old locus tag: ZBT109_p005
so part of: sequence
location: 3782..4429
location: region:3782-4429:1
so has part: feature:3782-4429:1:exon
subclass of: SO_0000010

position:3782:1
position: 3782
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4429:1
position: 4429
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3782-4429:1:exon

ZBT109_RS13475
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 33074
locus tag: ZBT109_RS13475
old locus tag: ZBT109_p005
inference: COORDINATES: protein motif:HMM:NF012409.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: glycoside hydrolase family 19 protein
translation: MAQEVTGEMLKQAFNDFQAYRRAGKIVVDYSLLSSIVMHFTAKNSPKKHEMQEYYLQNLVAPLNRWMPVYGIDTAIRAAHFLSQACCETFQFTAVTEIPKNGGKEYDGRKSLGNTQPGDGPRYIGRGLLHLTGRENYRVMGNKIGVNLEQNPNVVSDDLDIAVRTACEYWKNRGINAFADKDDFDTVTQKINGGHNGRDERYASLQRIKKKLGIV
SIO_010081: ZBT109_RS13475
subclass of: SO_0000673
so part of: ZBT109_RS13475
location: 3782..4429
location: region:3782-4429:1
so has part: feature:3782-4429:1:exon

WP_051523983.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3782-4429:1:exon

ZBT109_RS13480
type: Gene
subclass of: SO_0000704
RO_0002162: 33074
locus tag: ZBT109_RS13480
so part of: sequence
location: complement(4473..4952)
location: region:4473-4952:-1
so has part: feature:4473-4952:-1:exon
subclass of: SO_0000010

position:4473:-1
position: 4473
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4952:-1
position: 4952
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4473-4952:-1:exon

ZBT109_RS13480
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 33074
locus tag: ZBT109_RS13480
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: MLKKTLAACAILLSSHAIAESAPDCSLDKDKKIISNLFLSLENTNHSSYAYKLIDKNSVYTITLLSSTKANKNEKTYLMERRSKQNGDDKVYEPTKAQYMETNIYKQYYKIDFPGEESIIAEFYSIPHYCAVDLKNIYFISSAVEGFTPSFLDNTSTPY
SIO_010081: ZBT109_RS13480
subclass of: SO_0000673
so part of: ZBT109_RS13480
location: complement(4473..4952)
location: region:4473-4952:-1
so has part: feature:4473-4952:-1:exon

WP_027705632.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4473-4952:-1:exon