Halomonas venusta strain 4743 plasmid unnamed, complete sequence.
type: Entry
definition: Halomonas venusta strain 4743 plasmid unnamed, complete sequence.
sequence version: NZ_CP066540.1
sequence date: 2023-04-28
sequence: sequence
division: CON
label: NZ_CP066540.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN17080019
keyword: RefSeq
source: Halomonas venusta
organism: Halomonas venusta
taxonomy: Bacteria; Pseudomonadota; Gammaproteobacteria; Oceanospirillales; Halomonadaceae; Halomonas.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP066540.1.\nBacteria and source DNA available from Francisco Martinez-Abarca.\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 :: 01-AUG-2020\nAssembly Method :: Geneious assembler v. 11.1.5\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 40x\nSequencing Technology :: Illumina MiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/28/2023 11:03:38\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) :: 3,892\nCDSs (total) :: 3,810\nGenes (coding) :: 3,790\nCDSs (with protein) :: 3,790\nGenes (RNA) :: 82\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 60\nncRNAs :: 4\nPseudo Genes (total) :: 20\nCDSs (without protein) :: 20\nPseudo Genes (ambiguous residues) :: 0 of 20\nPseudo Genes (frameshifted) :: 3 of 20\nPseudo Genes (incomplete) :: 17 of 20\nPseudo Genes (internal stop) :: 2 of 20\nPseudo Genes (multiple problems) :: 2 of 20\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 6148
topology: circular
so has quality: SO_0000988
location: 1..6148
location: region:1-6148:1
RO_0002162: 44935

NZ_CP066540
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN17080019
type: BioSample
SIO_000068: biosample

1
title: Complete Genome Sequence of Halomonas venusta Type Strain DSM 4743, a Moderately Halophilic Marine Bacterium
author: Martinez-Abarca, F.
author: Hernandez-Soto, L.M.
author: Ramirez-Saad, H.C.
author: Aguirre-Garrido, J.F.
journal: Microbiol Resour Announc 10 (18) (2021)

2
title: Direct Submission
author: Aguirre-Garrido, J.F.
author: Hernandez-Soto, L.M.
author: Martinez-Abarca, F.
journal: Submitted (21-DEC-2020) Departamento de Ciencias Ambientales, Universidad Autonoma Metropolitana. Lerma, Av. de las Garzas 10. Col. El Panteon, Lerma de Villada, Mexico State 52006, Mexico

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

position:6148:1
position: 6148
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6148:1:source
so part of: sequence
organism: Halomonas venusta
mol type: genomic DNA
strain: 4743
isolation source: Sea
plasmid: unnamed
country: USA:Hawaii
collection date: 1973-04-30

44935
type: Taxonomy
SIO_000068: taxonomy

JDS37_RS19380
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19380
old locus tag: JDS37_19385
so part of: sequence
location: 686..1609
location: region:686-1609:1
so has part: feature:686-1609:1:exon
subclass of: SO_0000010

77017349
type: Gene
SIO_000068: ncbigene

position:686:1
position: 686
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1609:1
position: 1609
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:686-1609:1:exon

JDS37_RS19380
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19380
old locus tag: JDS37_19385
inference: COORDINATES: similar to AA sequence:RefSeq:WP_008566820.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: integrase domain-containing protein
translation: MSRNFGLGSRDMSKAAQFALNNTVQASGMGFSHAAETGRNFAQFAAFARENGVKQMEYVSRELVIEYGQQLADRVSNHEIGQGHAQNAVSAINTVMRVATQGAWQRVSPTRECGIDQRSAIRETPPTGFDRALLERGVAALNERGVAIADLARELGLRSKEASLLNAHAALREAVSRGAVTITDGTKGGRSREIPLTSARQIAVLERAAAAQGAARAVMPADQNWKSWRENGLREIRETLQQHGVSRLHDLRSAYACDRYQQITGYAPPILGGQAPRDIDREARLQIAGELGHGRISITNSYLGSNA
SIO_010081: JDS37_RS19380
subclass of: SO_0000673
so part of: JDS37_RS19380
location: 686..1609
location: region:686-1609:1
so has part: feature:686-1609:1:exon

WP_146945476.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:686-1609:1:exon

JDS37_RS19385
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19385
old locus tag: JDS37_19390
so part of: sequence
location: 1606..1899
location: region:1606-1899:1
so has part: feature:1606-1899:1:exon
subclass of: SO_0000010

77017350
type: Gene
SIO_000068: ncbigene

position:1606:1
position: 1606
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1899:1
position: 1899
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1606-1899:1:exon

JDS37_RS19385
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19385
old locus tag: JDS37_19390
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: MNALISRELRQKIDLYRRKGGKTSRRNTAARIERFIEAVGHPPEQIGKRHVYEFYEKQQFAPSTERDYHYAICQLWTMLGRAGEPPPPPSMPERTHA
SIO_010081: JDS37_RS19385
subclass of: SO_0000673
so part of: JDS37_RS19385
location: 1606..1899
location: region:1606-1899:1
so has part: feature:1606-1899:1:exon

WP_146945477.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1606-1899:1:exon

JDS37_RS19390
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19390
old locus tag: JDS37_19395
so part of: sequence
location: complement(1994..2260)
location: region:1994-2260:-1
so has part: feature:1994-2260:-1:exon
subclass of: SO_0000010

77017351
type: Gene
SIO_000068: ncbigene

position:1994:-1
position: 1994
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2260:-1
position: 2260
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1994-2260:-1:exon

JDS37_RS19390
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19390
old locus tag: JDS37_19395
inference: COORDINATES: similar to AA sequence:RefSeq:WP_019020823.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MARTRAIQSAEAPLWLEVLLAYAFGSEPAQRAAQLDLLGVAYDATAYPNDIPDARLAELLLAWAEQYVPGEDWQRLQARIRQRRSQLR
SIO_010081: JDS37_RS19390
subclass of: SO_0000673
so part of: JDS37_RS19390
location: complement(1994..2260)
location: region:1994-2260:-1
so has part: feature:1994-2260:-1:exon

WP_146945478.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1994-2260:-1:exon

JDS37_RS19395
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19395
old locus tag: JDS37_19400
so part of: sequence
location: complement(2261..2491)
location: region:2261-2491:-1
so has part: feature:2261-2491:-1:exon
subclass of: SO_0000010

77017352
type: Gene
SIO_000068: ncbigene

position:2261:-1
position: 2261
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2491:-1
position: 2491
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2261-2491:-1:exon

JDS37_RS19395
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19395
old locus tag: JDS37_19400
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: MALRKISDLKPVFSSERVTEWQPVPLGPRYRYERDRAAVGQEVTPGSEQYEWHVLANNDLAHAKRKVFALITEEYL
SIO_010081: JDS37_RS19395
subclass of: SO_0000673
so part of: JDS37_RS19395
location: complement(2261..2491)
location: region:2261-2491:-1
so has part: feature:2261-2491:-1:exon

WP_146945479.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2261-2491:-1:exon

JDS37_RS19400
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19400
old locus tag: JDS37_19405
so part of: sequence
location: 2989..3273
location: region:2989-3273:1
so has part: feature:2989-3273:1:exon
subclass of: SO_0000010

77017353
type: Gene
SIO_000068: ncbigene

position:2989:1
position: 2989
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3273:1
position: 3273
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2989-3273:1:exon

JDS37_RS19400
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19400
old locus tag: JDS37_19405
inference: COORDINATES: similar to AA sequence:RefSeq:WP_019951891.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: BrnT family toxin
translation: MAPGSEIEYDLRKQQDTLQHRGLDFNDAPAVFAGNTFSMMDDRQDYGEERIITVGKLSGKVTVIVWTQRGTKRRIISMRYANERERQRYEQHLV
SIO_010081: JDS37_RS19400
subclass of: SO_0000673
so part of: JDS37_RS19400
location: 2989..3273
location: region:2989-3273:1
so has part: feature:2989-3273:1:exon

WP_146945480.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2989-3273:1:exon

JDS37_RS19405
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19405
old locus tag: JDS37_19410
so part of: sequence
location: 3233..3523
location: region:3233-3523:1
so has part: feature:3233-3523:1:exon
subclass of: SO_0000010

77017354
type: Gene
SIO_000068: ncbigene

position:3233:1
position: 3233
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3523:1
position: 3523
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3233-3523:1:exon

JDS37_RS19405
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19405
old locus tag: JDS37_19410
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011735733.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: BrnA antitoxin family protein
translation: MNANDNGTNSTWFDPDDAPELTNEWFEAAHQYHGNTMVKRGRGRPPIPESERKVPVKIRYDQDVVEAFRQTGKGWQTRMNQALRQYLKEHNVHELN
SIO_010081: JDS37_RS19405
subclass of: SO_0000673
so part of: JDS37_RS19405
location: 3233..3523
location: region:3233-3523:1
so has part: feature:3233-3523:1:exon

WP_146945481.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3233-3523:1:exon

JDS37_RS19410
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19410
old locus tag: JDS37_19415
so part of: sequence
location: 3676..4146
location: region:3676-4146:1
so has part: feature:3676-4146:1:exon
subclass of: SO_0000010

77017355
type: Gene
SIO_000068: ncbigene

position:3676:1
position: 3676
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4146:1
position: 4146
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3676-4146:1:exon

JDS37_RS19410
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19410
old locus tag: JDS37_19415
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: MKLSKKILLALILIFSIKTPAMSESRKDAWYTTSNGGSSVMESIHGALYASLYEAKSGEPNVYIEAYSPEYCRENGERTIQHDPVSINGTLVQFSQHCRGEWNLFFASTEQGTRHVINQFRRSNSVTVEHGAFTFIFSAVGFIEHYNKLRNNLNAI
SIO_010081: JDS37_RS19410
subclass of: SO_0000673
so part of: JDS37_RS19410
location: 3676..4146
location: region:3676-4146:1
so has part: feature:3676-4146:1:exon

WP_146945482.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3676-4146:1:exon

JDS37_RS19415
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19415
old locus tag: JDS37_19420
so part of: sequence
location: 4575..5447
location: region:4575-5447:1
so has part: feature:4575-5447:1:exon
subclass of: SO_0000010

77017356
type: Gene
SIO_000068: ncbigene

position:4575:1
position: 4575
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5447:1
position: 5447
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4575-5447:1:exon

JDS37_RS19415
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19415
old locus tag: JDS37_19420
inference: COORDINATES: similar to AA sequence:RefSeq:WP_019020826.1
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: MDQLQVYKSNALIEAQYRLSVAEQRIMYACISQVRRDQPITDDVLYSISASELAEMSGTSTKQAYRELEKAALRLKRRDVRLIQEPNGQGRKRKVMITGWVQTIIYIEEEGRVELRLTKDMLPYLTNLTEQFTNFALRDVSRMTSSYGQRLYELLIQWRSLGRREVSIDWLRNAFLLEGKYPALKDFKRRVLEPAIEQINEHSPLWVKWDQRKTGRRVSHLVFTFGEKPSEKPVNARKAKASGNAKGKDKSTIGAIYGIPRAVIETNARVGESYEDAALRLLEESKHSAR
SIO_010081: JDS37_RS19415
subclass of: SO_0000673
so part of: JDS37_RS19415
location: 4575..5447
location: region:4575-5447:1
so has part: feature:4575-5447:1:exon

WP_146945474.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4575-5447:1:exon

JDS37_RS19420
type: Gene
subclass of: SO_0000704
RO_0002162: 44935
locus tag: JDS37_RS19420
old locus tag: JDS37_19425
so part of: sequence
location: 5536..5961
location: region:5536-5961:1
so has part: feature:5536-5961:1:exon
subclass of: SO_0000010

77017357
type: Gene
SIO_000068: ncbigene

position:5536:1
position: 5536
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5961:1
position: 5961
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5536-5961:1:exon

JDS37_RS19420
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 44935
locus tag: JDS37_RS19420
old locus tag: JDS37_19425
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: helix-turn-helix domain-containing protein
translation: MQFTIPQSAKLYGKHRSTVHRHIESGRLSCTLRGDGVRVIDMAELVRCYGEPAHLPPALQPNTTQDPEPFQQAMLQALHAMHSELVALREEVRHLRQLPAPDTETRAQETGADDDPHGLRAMARSAFAPRQSTDEDDEISS
SIO_010081: JDS37_RS19420
subclass of: SO_0000673
so part of: JDS37_RS19420
location: 5536..5961
location: region:5536-5961:1
so has part: feature:5536-5961:1:exon

WP_146945475.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5536-5961:1:exon