Bacillus velezensis strain JS25R plasmid pBMJS25R, complete sequence.
type: Entry
definition: Bacillus velezensis strain JS25R plasmid pBMJS25R, complete sequence.
sequence version: NZ_CP009680.1
sequence date: 2022-12-03
sequence: sequence
division: CON
label: NZ_CP009680.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN03104819
keyword: RefSeq
source: Bacillus velezensis
organism: Bacillus velezensis
taxonomy: Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus; Bacillus amyloliquefaciens group.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP009680.1.\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 :: SOAPdenovo v. 2.04\nGenome Coverage :: 256\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/03/2022 01:11:42\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.3\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 3,944\nCDSs (total) :: 3,837\nGenes (coding) :: 3,782\nCDSs (with protein) :: 3,782\nGenes (RNA) :: 107\nrRNAs :: 7, 7, 7 (5S, 16S, 23S)\ncomplete rRNAs :: 7, 7, 7 (5S, 16S, 23S)\ntRNAs :: 81\nncRNAs :: 5\nPseudo Genes (total) :: 55\nCDSs (without protein) :: 55\nPseudo Genes (ambiguous residues) :: 0 of 55\nPseudo Genes (frameshifted) :: 34 of 55\nPseudo Genes (incomplete) :: 32 of 55\nPseudo Genes (internal stop) :: 10 of 55\nPseudo Genes (multiple problems) :: 19 of 55\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 8438
topology: circular
so has quality: SO_0000988
location: 1..8438
location: region:1-8438:1
RO_0002162: 492670

NZ_CP009680
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN03104819
type: BioSample
SIO_000068: biosample

1
title: Complete genome sequence of Bacillus methylotrophicus JS25R isolated from spikelets of wheat heads, with biocontrol activity against Fusarium verticilliodes and Alternaria alternate
author: Zhao, Y.
author: Sangare, L.
author: Wang, Y.
author: Folly, Y.M.
author: Selvaraj, J.N.
author: Xing, F.
author: Zhou, L.
author: Liu, Y.
journal: Unpublished

2
title: Direct Submission
author: Zhao, Y.
author: Sangare, L.
author: Wang, Y.
author: Folly, Y.M.
author: Selvaraj, J.N.
author: Xing, F.
author: Zhou, L.
author: Liu, Y.
journal: Submitted (24-OCT-2014) Food quality and safety, Institute of Agro-products Processing Science and Technology, Chinese Academy of Agricultural Sciences, Yuanmingyuan West Road No. 2, Beijing, Beijing 100093, China

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

position:8438:1
position: 8438
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8438:1:source
so part of: sequence
organism: Bacillus velezensis
mol type: genomic DNA
strain: JS25R
isolation source: wheat head
host: wheat
plasmid: pBMJS25R
country: China: Yancheng, Jiangsu Province
lat lon: 33.38 N 120.13 E
collection date: 2012-06-25

492670
type: Taxonomy
SIO_000068: taxonomy

NG74_RS19330
type: Gene
subclass of: SO_0000704
RO_0002162: 492670
locus tag: NG74_RS19330
so part of: sequence
location: join(7924..8438,1..505)
location: region:1-8438:1
so has part: feature:7924-8438:1:exon
so has part: feature:1-505:1:exon
subclass of: SO_0000010

66324115
type: Gene
SIO_000068: ncbigene

urn:…
SIO_000300: 1
SIO_000628: feature:7924-8438:1:exon

position:7924:1
position: 7924
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:1-505:1:exon

position:505:1
position: 505
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

NG74_RS19330
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 492670
locus tag: NG74_RS19330
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017473913.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: protein rep
translation: MYSSENDYSILEDKTATGKKRDWKGKKRRTNLMAEHYEALQKKIGAPYYGKKAEKLSGCAECLSFKRDPETDKLKLYQAHFCKVRLCPMCAWRRSLKIAYHNKLIVEEANRQYGCGWIFLTLTVRNVVGEELKLKISDMMKGFNRLMKYKSVDTGVLGYFRALEITKNHEEDTYHPHFHVLLPVKRSYFGKNYIKQAEWTSLWKRAMKLDYTPIVDIRRVKGRAKIDAEKIESDVREAMMEQKAVLEISKYPVKDTDVVRGSKVTEDNLNTVFYLDDALSARRLIGYGGILKEIHKELNLGDAEDGDLVKIEEEDDEMANEAFEVMAYWHPGIKNYIIK
SIO_010081: NG74_RS19330
subclass of: SO_0000673
so part of: NG74_RS19330
location: join(7924..8438,1..505)
location: region:1-8438:1
so has part: feature:7924-8438:1:exon
so has part: feature:1-505:1:exon

WP_013085569.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7924-8438:1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:1-505:1:exon

NG74_RS19335
type: Gene
subclass of: SO_0000704
RO_0002162: 492670
locus tag: NG74_RS19335
old locus tag: NG74_p00002
so part of: sequence
location: complement(543..1913)
location: region:543-1913:-1
so has part: feature:543-1913:-1:exon
subclass of: SO_0000010

66324116
type: Gene
SIO_000068: ncbigene

position:543:-1
position: 543
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1913:-1
position: 1913
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:543-1913:-1:exon

NG74_RS19335
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 492670
locus tag: NG74_RS19335
old locus tag: NG74_p00002
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003183736.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MKKIYILSFFIILLCLSVTTNTSHAKNLSNDVETNVKDGHVTLKVNYTGDTYKFFKNGKSIYTGSSNEINSDISKIGDKYKIGIYQDNTLKKVITLNVTNDLQEEANKITVSAETKEESYNEKLMDYKIKNSHINVVATTDDVKLSWNQLPDEDGIYEIYRDDKKIGETTDLNFTDKNVKPGERYNYSINVSVKPSKEQQEKMEKKFDELGSTLSDKEKEEVMSVEGSLSTIVDMPKNEESYLKSKKSVLNEVTDNGKLSAQGKLPKDNMHGWAYRTFIPYKSVADPKPEFKKTYLKGDGRDFSATSNKFRTESSVNTQFTGPTSITMYKKVSQSVRCKDAACTKVLDKKTASAAGMKLYINSKKSDYLHWTVTHAIGIPFGAYYPKIDYDYNVMLTKGMASISGKHDKAPNHEFYVSAPSSSKATTIYRYAVKSKKDFVELWFAKAKKSWKTELF
SIO_010081: NG74_RS19335
subclass of: SO_0000673
so part of: NG74_RS19335
location: complement(543..1913)
location: region:543-1913:-1
so has part: feature:543-1913:-1:exon

WP_040123294.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:543-1913:-1:exon

NG74_RS19340
type: Gene
subclass of: SO_0000704
RO_0002162: 492670
locus tag: NG74_RS19340
old locus tag: NG74_p00003
so part of: sequence
location: 1967..2350
location: region:1967-2350:1
so has part: feature:1967-2350:1:exon
subclass of: SO_0000010

66324117
type: Gene
SIO_000068: ncbigene

position:1967:1
position: 1967
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2350:1
position: 2350
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1967-2350:1:exon

NG74_RS19340
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 492670
locus tag: NG74_RS19340
old locus tag: NG74_p00003
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003216904.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: UPF0715 family protein
translation: MRILSRIFGYVCMVVLSVISATFAYMIVFTPPDFGFGYFQVTSLFIFVAYFIFATPIQLFLHRKPQKFNIRYLLVYFLSAFIVCSVLALLTDYGLIVFVRYELYVFSFLLALIYWFWDSVFLQKKRL
SIO_010081: NG74_RS19340
subclass of: SO_0000673
so part of: NG74_RS19340
location: 1967..2350
location: region:1967-2350:1
so has part: feature:1967-2350:1:exon

WP_013085575.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1967-2350:1:exon

NG74_RS19345
type: Gene
subclass of: SO_0000704
RO_0002162: 492670
locus tag: NG74_RS19345
old locus tag: NG74_p00004
so part of: sequence
location: 2829..4280
location: region:2829-4280:1
so has part: feature:2829-4280:1:exon
subclass of: SO_0000010

66324118
type: Gene
SIO_000068: ncbigene

position:2829:1
position: 2829
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4280:1
position: 4280
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2829-4280:1:exon

NG74_RS19345
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 492670
locus tag: NG74_RS19345
old locus tag: NG74_p00004
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011255099.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: 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: MobV family relaxase
translation: MANYAVIRMEKYKKDRLNGTQKHNQREFQKSKNENIDRGRSHLNYDLVNGQPISYAQAVREKIEGRVKRKVRDDAVLVSEFLITASPDYMNGLSETEQRRYFEAAVDHLKEKYTAENMLYATVHMDEATPHMHVGIVPITEDGRLSAKDFFNGKLKMKAIQDDFHRHMVKSGFDLERGEPSEKKHENVHQYKINQRKAELERLNAEIALKEKRKAELEQQNRAVESVVSVKKEALTAKTQEQRIPTVEYEKAGLFKKDKVTVPQHELENLYAYAEDQGKMAAQLSRQLEAETEEKERWKSIAVEERERADSKDKMLSDLQTVMNEEVEKAKRGMRRKLTKEFTEEQREELRQEVKEELSALKTENSELRTENRDLKRLTLSLSEQKDNEVKKHAETKKSLKAERGRYGELLNFAQEQNKEFQSLNEENKTLRDRVAVLEQWKDKMVQWAKEKLPRVRKLAASFFRTAGMPREANKYKDHELER
SIO_010081: NG74_RS19345
subclass of: SO_0000673
so part of: NG74_RS19345
location: 2829..4280
location: region:2829-4280:1
so has part: feature:2829-4280:1:exon

WP_040123295.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2829-4280:1:exon

NG74_RS19350
type: Gene
subclass of: SO_0000704
RO_0002162: 492670
locus tag: NG74_RS19350
old locus tag: NG74_p00005
so part of: sequence
location: complement(4293..4772)
location: region:4293-4772:-1
so has part: feature:4293-4772:-1:exon
subclass of: SO_0000010

66324119
type: Gene
SIO_000068: ncbigene

position:4293:-1
position: 4293
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4772:-1
position: 4772
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4293-4772:-1:exon

NG74_RS19350
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 492670
locus tag: NG74_RS19350
old locus tag: NG74_p00005
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010890187.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MerR family transcriptional regulator
translation: MDMGVKLSSKDVAKHLGIEPVTVRKYASMLEEQGYSFNKDSKGWRLYTEDDVKTLEYLCTMTKINGHSLDETVKHIASLYRSKLTISDTATSLQDNPLVEFMKRQEEFNQRMAERMEQFEKRQQERHETLTAALRESLETQRMIAATKQKKWWQFWKNS
SIO_010081: NG74_RS19350
subclass of: SO_0000673
so part of: NG74_RS19350
location: complement(4293..4772)
location: region:4293-4772:-1
so has part: feature:4293-4772:-1:exon

WP_040123296.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4293-4772:-1:exon

NG74_RS20345
type: Gene
subclass of: SO_0000704
RO_0002162: 492670
locus tag: NG74_RS20345
old locus tag: NG74_p00006
so part of: sequence
location: 5058..5225
location: region:5058-5225:1
so has part: feature:5058-5225:1:exon
subclass of: SO_0000010

66324238
type: Gene
SIO_000068: ncbigene

position:5058:1
position: 5058
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5225:1
position: 5225
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5058-5225:1:exon

NG74_RS20345
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 492670
locus tag: NG74_RS20345
old locus tag: NG74_p00006
inference: COORDINATES: similar to AA sequence:RefSeq:WP_019772789.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: antitoxin VbhA family protein
translation: MQKIDFETGMKYVRATLGFEGLVLTAEEEKLLERRFHGEITEEEYIRKALELSYL
SIO_010081: NG74_RS20345
subclass of: SO_0000673
so part of: NG74_RS20345
location: 5058..5225
location: region:5058-5225:1
so has part: feature:5058-5225:1:exon

WP_019772789.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5058-5225:1:exon

NG74_RS19355
type: Gene
subclass of: SO_0000704
RO_0002162: 492670
locus tag: NG74_RS19355
old locus tag: NG74_p00008
so part of: sequence
location: 5806..6927
location: region:5806-6927:1
so has part: feature:5806-6927:1:exon
subclass of: SO_0000010

66324120
type: Gene
SIO_000068: ncbigene

position:5806:1
position: 5806
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6927:1
position: 6927
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5806-6927:1:exon

NG74_RS19355
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 492670
locus tag: NG74_RS19355
old locus tag: NG74_p00008
inference: COORDINATES: similar to AA sequence:RefSeq:WP_015388804.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: RapH N-terminal domain-containing protein
translation: MSAIPSATVGVKINDWHEYINRFDAKNAEKCKAEVEKMIEEMEEDQDLLLYYQLISFRHDLMMDYLFPSDSSKKLETWEYLRKSEGTGQKLTKLLKYYDHLFRGMYEFRNGDYVAAINHYQKAEAKIARVTDEIEKAEFYFKMAEVFYHMKQTHVSMYYVKMSYDKYKKHPAYKVNMIKCLFVIAGNYDDLNNHKKALVHLQIALEMAEEVGNELMQTFAYLNMGNSYNRLQSPMAIPLYHQAIKLAKKAGAKEIIQAYYDLSLIHFQNGEMIEGRDFFKKAVKEAEAFENEFYMKLLNVLKALFIDTANRQNVKNALYGLKTEKGYPYFEELALVAAEFYTKKRRMEDSIYFYNEMVCAQRQIQRSDSHYEI
SIO_010081: NG74_RS19355
subclass of: SO_0000673
so part of: NG74_RS19355
location: 5806..6927
location: region:5806-6927:1
so has part: feature:5806-6927:1:exon

WP_013085571.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5806-6927:1:exon