Bacillus badius strain NBPM-293 plasmid pPM8, complete sequence.
type: Entry
definition: Bacillus badius strain NBPM-293 plasmid pPM8, complete sequence.
sequence version: NZ_CP082365.1
sequence date: 2023-06-18
sequence: sequence
division: CON
label: NZ_CP082365.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN21156371
keyword: RefSeq
source: Bacillus badius
organism: Bacillus badius
taxonomy: Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP082365.1.\nBacteria and source DNA available from National Biopesticide\nEngineering Technology Research Center.\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 :: Unicycler v. 2.1.2\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 243.5x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 06/18/2023 15:42:49\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) :: 4,391\nCDSs (total) :: 4,254\nGenes (coding) :: 4,207\nCDSs (with protein) :: 4,207\nGenes (RNA) :: 137\nrRNAs :: 11, 11, 11 (5S, 16S, 23S)\ncomplete rRNAs :: 11, 11, 11 (5S, 16S, 23S)\ntRNAs :: 99\nncRNAs :: 5\nPseudo Genes (total) :: 47\nCDSs (without protein) :: 47\nPseudo Genes (ambiguous residues) :: 0 of 47\nPseudo Genes (frameshifted) :: 14 of 47\nPseudo Genes (incomplete) :: 29 of 47\nPseudo Genes (internal stop) :: 9 of 47\nPseudo Genes (multiple problems) :: 5 of 47\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 8202
topology: circular
so has quality: SO_0000988
location: 1..8202
location: region:1-8202:1
RO_0002162: 1455

NZ_CP082365
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN21156371
type: BioSample
SIO_000068: biosample

1
title: Complete Genome Sequence of Bacillus badius NBPM-293, a Plant Growth-Promoting Rhizobacterium Isolated from Soil
author: Zhu, L.
author: Min, Y.
author: Zhou, R.
journal: Unpublished

2
title: Direct Submission
author: Zhu, L.
author: Min, Y.
author: Zhou, R.
journal: Submitted (31-AUG-2021) Hubei Biopesticide Engineering Research Center, National Biopesticide Engineering Technology Research Center, Hubei Academy of Agricultural Sciences, No.8,Nanhu Ave.,Hongshan District, Wuhan, Hubei 430064, China

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

position:8202:1
position: 8202
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8202:1:source
so part of: sequence
organism: Bacillus badius
mol type: genomic DNA
strain: NBPM-293
isolation source: soil
plasmid: pPM8
collection date: 2020

1455
type: Taxonomy
SIO_000068: taxonomy

K7T73_RS21780
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21780
old locus tag: K7T73_21740
so part of: sequence
location: complement(join(8172..8202,1..548))
location: region:1-8202:-1
so has part: feature:1-548:-1:exon
so has part: feature:8172-8202:-1:exon
subclass of: SO_0000010

82148065
type: Gene
SIO_000068: ncbigene

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

position:8202:-1
position: 8202
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-548:-1:exon

position:548:-1
position: 548
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:8172-8202:-1:exon

position:8172:-1
position: 8172
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

K7T73_RS21780
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21780
old locus tag: K7T73_21740
inference: COORDINATES: similar to AA sequence:RefSeq:WP_006097634.1
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: MDKSDYQSEGRLNNNQAPIEFTIKEIANLLNESPNVIRNWVKELRDYIPLTKNESGYNVFDQKALEKMKSIKMMHRQQNYSIKQIKHYFATGGEAFQPLPEKGPAELLAEELRKMREELQFLRESVQKQEEFNQALVKKLDQQQKYIDDKLETRDHQLMKALNETQEVKRLMQEEKNGQAEKKKGFFARLFS
SIO_010081: K7T73_RS21780
subclass of: SO_0000673
so part of: K7T73_RS21780
location: complement(join(8172..8202,1..548))
location: region:1-8202:-1
so has part: feature:1-548:-1:exon
so has part: feature:8172-8202:-1:exon

WP_041102151.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-548:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:8172-8202:-1:exon

K7T73_RS21785
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21785
old locus tag: K7T73_21745
so part of: sequence
location: 836..1258
location: region:836-1258:1
so has part: feature:836-1258:1:exon
subclass of: SO_0000010

82148066
type: Gene
SIO_000068: ncbigene

position:836:1
position: 836
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1258:1
position: 1258
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:836-1258:1:exon

K7T73_RS21785
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21785
old locus tag: K7T73_21745
inference: COORDINATES: similar to AA sequence:RefSeq:WP_001048450.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helix-turn-helix transcriptional regulator
translation: MNLGEQLQSLREGKNMSREELSQEMNVSRQAVYKWENNKGYPDIENLIKLSEFYNITLDELIKRDQQFQKKISIDEKEKKFEEFSDPGFYIGILLVFIGLFTELGSFSVGLTILGFFTIVFYDDFKKLFLDLKKDFMKRS
SIO_010081: K7T73_RS21785
subclass of: SO_0000673
so part of: K7T73_RS21785
location: 836..1258
location: region:836-1258:1
so has part: feature:836-1258:1:exon

WP_223664305.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:836-1258:1:exon

K7T73_RS21790
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21790
old locus tag: K7T73_21750
so part of: sequence
location: 1785..2381
location: region:1785-2381:1
so has part: feature:1785-2381:1:exon
subclass of: SO_0000010

82148067
type: Gene
SIO_000068: ncbigene

position:1785:1
position: 1785
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2381:1
position: 2381
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1785-2381:1:exon

K7T73_RS21790
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21790
old locus tag: K7T73_21750
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: MNERKDNLEKLENSLEVMKQQGHSSEVTNLVEKAQLQQPAPCSPVIFDCCTITLAPESILEFPFGLINIGADFFFLDCCITEVSSDALTPCGIIPDACTVNEVRATGHINYVASFTIPTFYNNGAGDCNEVVEQTFSCSGTTCVNNVICYAPVTEDNPCPDFCNGNTQAFAYIQDIDYCSGQKAIVTVGIVFVLPECI
SIO_010081: K7T73_RS21790
subclass of: SO_0000673
so part of: K7T73_RS21790
location: 1785..2381
location: region:1785-2381:1
so has part: feature:1785-2381:1:exon

WP_087903800.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1785-2381:1:exon

K7T73_RS21795
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21795
old locus tag: K7T73_21755
so part of: sequence
location: complement(2804..2992)
location: region:2804-2992:-1
so has part: feature:2804-2992:-1:exon
subclass of: SO_0000010

82148068
type: Gene
SIO_000068: ncbigene

position:2804:-1
position: 2804
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2992:-1
position: 2992
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2804-2992:-1:exon

K7T73_RS21795
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21795
old locus tag: K7T73_21755
inference: COORDINATES: protein motif:HMM:NF024710.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF4083 family protein
translation: MVNIGDVIFQIVMLLFVVLFFVSLFLFIRGLRKSQVYRSDALKRIEGKLDKIIENQERQSRN
SIO_010081: K7T73_RS21795
subclass of: SO_0000673
so part of: K7T73_RS21795
location: complement(2804..2992)
location: region:2804-2992:-1
so has part: feature:2804-2992:-1:exon

WP_223664314.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2804-2992:-1:exon

K7T73_RS21800
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21800
old locus tag: K7T73_21760
so part of: sequence
location: complement(3114..3599)
location: region:3114-3599:-1
so has part: feature:3114-3599:-1:exon
subclass of: SO_0000010

82148069
type: Gene
SIO_000068: ncbigene

position:3114:-1
position: 3114
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3599:-1
position: 3599
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3114-3599:-1:exon

K7T73_RS21800
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21800
old locus tag: K7T73_21760
inference: COORDINATES: similar to AA sequence:RefSeq:WP_018708185.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF4181 domain-containing protein
translation: MEYSFDSLELFPTDLVNSNNKWKIYGKMNMKRGDCLGFFMLIIVLLALILLFTTLEKTINKLLGVEKKKISETPGKNIDRWGRTIILVTFLCTLAFVITKDINVIKWYWILYFVLSLGFQSILEWKYLKNSKQYVSTLIFLILTVIIIFNMEYFIQLLDWS
SIO_010081: K7T73_RS21800
subclass of: SO_0000673
so part of: K7T73_RS21800
location: complement(3114..3599)
location: region:3114-3599:-1
so has part: feature:3114-3599:-1:exon

WP_223664316.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3114-3599:-1:exon

K7T73_RS21805
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21805
old locus tag: K7T73_21765
so part of: sequence
location: complement(3673..3936)
location: region:3673-3936:-1
so has part: feature:3673-3936:-1:exon
subclass of: SO_0000010

82148070
type: Gene
SIO_000068: ncbigene

position:3673:-1
position: 3673
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3936:-1
position: 3936
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3673-3936:-1:exon

K7T73_RS21805
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21805
old locus tag: K7T73_21765
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012159117.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: CPCC family cysteine-rich protein
translation: MKYTCPCCGYKTLDEEPTDTYEICEICFWEDDGVQFRDPDYEGGANEVSLRQAQHNFIKFGACDKGSLKFVRHPNNSDIKDNNWQPL
SIO_010081: K7T73_RS21805
subclass of: SO_0000673
so part of: K7T73_RS21805
location: complement(3673..3936)
location: region:3673-3936:-1
so has part: feature:3673-3936:-1:exon

WP_223664318.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3673-3936:-1:exon

K7T73_RS21810
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21810
old locus tag: K7T73_21770
so part of: sequence
location: complement(4253..4597)
location: region:4253-4597:-1
so has part: feature:4253-4597:-1:exon
subclass of: SO_0000010

82148071
type: Gene
SIO_000068: ncbigene

position:4253:-1
position: 4253
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4597:-1
position: 4597
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4253-4597:-1:exon

K7T73_RS21810
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21810
old locus tag: K7T73_21770
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017427565.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF4440 domain-containing protein
translation: MRELEGTLLALEKQLMHYRVKDFETVLSEDFREFGTSGRVYDKTKQLSFVNAKGIADIPFIITNFHAELLSENIAHVTYQTESKSDGSKSLRSSIWRYENAQWCLYFHQGTRTT
SIO_010081: K7T73_RS21810
subclass of: SO_0000673
so part of: K7T73_RS21810
location: complement(4253..4597)
location: region:4253-4597:-1
so has part: feature:4253-4597:-1:exon

WP_223664294.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4253-4597:-1:exon

K7T73_RS21815
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21815
old locus tag: K7T73_21775
so part of: sequence
location: complement(4701..5588)
location: region:4701-5588:-1
so has part: feature:4701-5588:-1:exon
subclass of: SO_0000010

82148072
type: Gene
SIO_000068: ncbigene

position:4701:-1
position: 4701
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5588:-1
position: 5588
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4701-5588:-1:exon

K7T73_RS21815
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21815
old locus tag: K7T73_21775
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: transcriptional regulator
translation: MTVSRMLSNEEFKQMMSYKPYANNHKEQQSMKLKLLKVVEEVYGDSYYRLKKETRQAIDMMCWLSSERGFFFAKDDYLADRHDISDRTIRNVAKKLREHGVLFSVYRRSTKQNGRSAPVHLFVDHPYFSYWEELLNLSDFQADFQTENAETPCGSKDEEAKKVPTYSLPLKKSFNKYIRKEEPVLDESFTPSHIPKSFILAVKPFFGQAKEIYKLWGKAMLAYRITRLNTPLEELTELVVQAFKESIFSHKHSRIKGSFNAYFFGTLRNMMTVEKRREIMNNDPIFTQFKAYMES
SIO_010081: K7T73_RS21815
subclass of: SO_0000673
so part of: K7T73_RS21815
location: complement(4701..5588)
location: region:4701-5588:-1
so has part: feature:4701-5588:-1:exon

WP_223664295.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4701-5588:-1:exon

K7T73_RS21820
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21820
old locus tag: K7T73_21780
so part of: sequence
location: complement(5921..7066)
location: region:5921-7066:-1
so has part: feature:5921-7066:-1:exon
subclass of: SO_0000010

82148073
type: Gene
SIO_000068: ncbigene

position:5921:-1
position: 5921
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:7066:-1
position: 7066
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5921-7066:-1:exon

K7T73_RS21820
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21820
old locus tag: K7T73_21780
inference: COORDINATES: similar to AA sequence:RefSeq:WP_018392230.1
GO process: GO:0051301 - cell division [Evidence IEA]; GO:0009252 - peptidoglycan biosynthetic process [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: FtsW/RodA/SpoVE family cell cycle protein
translation: MLRVYDFPIFFTTIALCLFGLIMVYSSSMISAVARYDFPVDYFYQKQKSALIIGFFGMLVAMIFPYKAYQGKDFLMWITGGTVALLILTFIIGHTAGNAQSWIKIGTRVIQPGEFSKLTIIIYLAAIFGKRQNRINQIDKAVFPPLILLMAICFLIAMQPDYGTALIILMIASSIIICSGMSLKSLSKLFSLLMVSVIIMFFLVIISGNIQSILSEERVSRFTSLIEPFETQEDAGYQLANSLIAIGAGGLSGQGLGQSFQKYGYLPESHTDFILAIIAEELGVFGVSFVLGGLSFIVLRSYILAARCKDPFGSLLIIGISSMIGIQVFINAGGVVGLIPITGITLPFISYGGSSLLLLMVSVGILQNVVMRSNISADRKK
SIO_010081: K7T73_RS21820
subclass of: SO_0000673
so part of: K7T73_RS21820
location: complement(5921..7066)
location: region:5921-7066:-1
so has part: feature:5921-7066:-1:exon

WP_223664320.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5921-7066:-1:exon

K7T73_RS21825
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21825
old locus tag: K7T73_21785
so part of: sequence
location: complement(7295..7858)
location: region:7295-7858:-1
so has part: feature:7295-7858:-1:exon
subclass of: SO_0000010

82148074
type: Gene
SIO_000068: ncbigene

position:7295:-1
position: 7295
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:7858:-1
position: 7858
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7295-7858:-1:exon

K7T73_RS21825
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21825
old locus tag: K7T73_21785
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017754952.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MTTRQGQNSVEPIRDPEKIRMMKEYLLHKSYRDYFLFTFGINSGLRISDILPLRVMDVRHTEHLRIREKKTGNVRKIKMSAALKQEIEKYTRQMADSDPLFPSRKGKGPIGRQTAWRAINEASRACGIEGAIGTHTMRKTFGYHFYQQTKDVAMLQQIFGHSSPSITLRYIGINDEMVDRVLEEFSL
SIO_010081: K7T73_RS21825
subclass of: SO_0000673
so part of: K7T73_RS21825
location: complement(7295..7858)
location: region:7295-7858:-1
so has part: feature:7295-7858:-1:exon

WP_223664303.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7295-7858:-1:exon