Bacillus badius strain NBPM-293 plasmid pPM6, complete sequence.
type: Entry
definition: Bacillus badius strain NBPM-293 plasmid pPM6, complete sequence.
sequence version: NZ_CP082366.1
sequence date: 2023-06-18
sequence: sequence
division: CON
label: NZ_CP082366.1
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\nCP082366.1.\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: 5458
topology: circular
so has quality: SO_0000988
location: 1..5458
location: region:1-5458:1
RO_0002162: 1455

NZ_CP082366
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:5458:1
position: 5458
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-5458:1:source
so part of: sequence
organism: Bacillus badius
mol type: genomic DNA
strain: NBPM-293
isolation source: soil
plasmid: pPM6
collection date: 2020

1455
type: Taxonomy
SIO_000068: taxonomy

K7T73_RS21830
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21830
old locus tag: K7T73_21790
so part of: sequence
location: 611..1048
location: region:611-1048:1
so has part: feature:611-1048:1:exon
subclass of: SO_0000010

82148075
type: Gene
SIO_000068: ncbigene

position:611:1
position: 611
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1048:1
position: 1048
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:611-1048:1:exon

K7T73_RS21830
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21830
old locus tag: K7T73_21790
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010891078.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: Hsp20/alpha crystallin family protein
translation: MSLVPYDPFRQLSNMRREFDRFFSELPISFDNEHGIGGIRVDVHETENEVVATCDLPGLEKKEDVDIDIQNNRLSISGSIKRTNEIKEENMLKKERYTGRFQRMITLPSPVSHDGVKATYKNGILEITMPKVAKDVKKKIDVSFQ
SIO_010081: K7T73_RS21830
subclass of: SO_0000673
so part of: K7T73_RS21830
location: 611..1048
location: region:611-1048:1
so has part: feature:611-1048:1:exon

WP_010891078.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:611-1048:1:exon

K7T73_RS21835
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21835
old locus tag: K7T73_21795
so part of: sequence
location: 1050..1223
location: region:1050-1223:1
so has part: feature:1050-1223:1:exon
subclass of: SO_0000010

82148076
type: Gene
SIO_000068: ncbigene

position:1050:1
position: 1050
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1223:1
position: 1223
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1050-1223:1:exon

K7T73_RS21835
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21835
old locus tag: K7T73_21795
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017250230.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSKLLLVMKDFGYDYMQELAKESPDLVDLIILTIHSPEQQKKKVISELTDNIKKSFL
SIO_010081: K7T73_RS21835
subclass of: SO_0000673
so part of: K7T73_RS21835
location: 1050..1223
location: region:1050-1223:1
so has part: feature:1050-1223:1:exon

WP_017250230.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1050-1223:1:exon

K7T73_RS21840
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21840
old locus tag: K7T73_21800
so part of: sequence
location: 1435..2217
location: region:1435-2217:1
so has part: feature:1435-2217:1:exon
subclass of: SO_0000010

82148077
type: Gene
SIO_000068: ncbigene

position:1435:1
position: 1435
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2217:1
position: 2217
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1435-2217:1:exon

K7T73_RS21840
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21840
old locus tag: K7T73_21800
inference: COORDINATES: similar to AA sequence:RefSeq:WP_002817982.1
GO function: GO:0019152 - acetoin dehydrogenase activity [Evidence IEA]
GO process: GO:0045150 - acetoin catabolic process [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: acetoin reductase
translation: MNSENKVAIITGSAGGLGKAIAERLANDGFNIVVQDINNDLLLETEKEFKEKGYNVISFKSDVSKQKEQEELVKFTVKEFNKLDVFINNAGVDAVTPFLEIDENQLNKLFNINVFGTVYGTQAAAKQFIKQNTKGKIINACSIAGHESYEMLGTYSATKHAVRSYTQVAAKELAKYKINVNAYCPGVAKTKMWERIDKEMVKYDENLNPGDAFEKFSSAIKLGRYQEPKDVANLVSFLASEDSDYITGQSILTDGGLVYR
SIO_010081: K7T73_RS21840
subclass of: SO_0000673
so part of: K7T73_RS21840
location: 1435..2217
location: region:1435-2217:1
so has part: feature:1435-2217:1:exon

WP_223664327.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1435-2217:1:exon

K7T73_RS21845
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS21845
old locus tag: K7T73_21805
so part of: sequence
location: 3229..3777
location: region:3229-3777:1
so has part: feature:3229-3777:1:exon
subclass of: SO_0000010

82148078
type: Gene
SIO_000068: ncbigene

position:3229:1
position: 3229
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3777:1
position: 3777
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3229-3777:1:exon

K7T73_RS21845
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS21845
old locus tag: K7T73_21805
inference: COORDINATES: protein motif:HMM:NF017542.2
GO function: GO:0003677 - DNA binding [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: winged helix-turn-helix domain-containing protein
translation: MTTLTIGETKNVLDPNSRTFEERERELEELKKQEEEERKRQQGSPYKRWVQMNKDAYKAEDWLMSKSPIAYRIFKFLINNMDSYNAVMCSYNVLQEQFEISKPTVTRAIKLLREKQYIDVYKSGTSNIYAVNKQIAWNSWGTNYKHGKFGANIIISESEQENSMKTKIQSQLHKEITIEIKE
SIO_010081: K7T73_RS21845
subclass of: SO_0000673
so part of: K7T73_RS21845
location: 3229..3777
location: region:3229-3777:1
so has part: feature:3229-3777:1:exon

WP_223664322.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3229-3777:1:exon

K7T73_RS22005
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
locus tag: K7T73_RS22005
so part of: sequence
location: complement(3929..4051)
location: region:3929-4051:-1
so has part: feature:3929-4051:-1:exon
subclass of: SO_0000010

82148110
type: Gene
SIO_000068: ncbigene

position:3929:-1
position: 3929
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4051:-1
position: 4051
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3929-4051:-1:exon

K7T73_RS22005
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
locus tag: K7T73_RS22005
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: MNMRNDVFDRIKTTKRRVSEAEKILAYLEKMKPLKHKSLQ
SIO_010081: K7T73_RS22005
subclass of: SO_0000673
so part of: K7T73_RS22005
location: complement(3929..4051)
location: region:3929-4051:-1
so has part: feature:3929-4051:-1:exon

WP_263300293.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3929-4051:-1:exon

K7T73_RS21850
type: Gene
subclass of: SO_0000704
RO_0002162: 1455
gene: mobV
locus tag: K7T73_RS21850
old locus tag: K7T73_21810
so part of: sequence
location: complement(4065..5414)
location: region:4065-5414:-1
so has part: feature:4065-5414:-1:exon
subclass of: SO_0000010

82148079
type: Gene
SIO_000068: ncbigene

position:4065:-1
position: 4065
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5414:-1
position: 5414
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4065-5414:-1:exon

K7T73_RS21850
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1455
gene: mobV
locus tag: K7T73_RS21850
old locus tag: K7T73_21810
inference: COORDINATES: protein motif:HMM:NF013258.2
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: MSFAVLHMQKLKSPAIKGIQIHNQREKESQTNGDIDGSRSHLNYDLVNSKPIDYSEKVNKMIEEGVTTGKAIRKDAVKVASFLVTSDSEYFQKLSEQEEKRFFESAYEFFANEYGEKNIAYAMVHKDEKTPHMHVGFVPITEDGRLSAKDFFGKKQQLVKLQDKFHDHMVREGFDLERGVSSDRKHVETAKYKALTFQQMEQEAREKYERTMGHIQEIDDKTKAIENIQPKKVLGLVGMKEQDYKSLVDYATNGVVYQQKAEVLQKELEKAKTEVQQLKSDMQIGQDKIRHYYKDVEQNLDTLVEKKAVEKVKQAEVVQKYGNLVEKYNGLVHKYNDQLKEKKQLKQEVDTLKLENRSYQNENRELKSENGQLKEKLMQISKEFSAFKQRVGNVLHAQIDRVKTFLRIRDIAPSHIKALDDKQDKLVQDSLQKLEKPQKENEKDIELEM
SIO_010081: K7T73_RS21850
subclass of: SO_0000673
so part of: K7T73_RS21850
location: complement(4065..5414)
location: region:4065-5414:-1
so has part: feature:4065-5414:-1:exon

WP_223664326.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4065-5414:-1:exon