Bacillus altitudinis strain GR-8 plasmid pGR8, complete sequence.
type: Entry
definition: Bacillus altitudinis strain GR-8 plasmid pGR8, complete sequence.
sequence version: NZ_CP009109.1
sequence date: 2023-02-11
sequence: sequence
division: CON
label: NZ_CP009109.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN02905161
keyword: RefSeq
source: Bacillus altitudinis (Bacillus invictae)
organism: Bacillus altitudinis
taxonomy: Bacteria; Bacillota; Bacilli; Bacillales; Bacillaceae; Bacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP009109.1.\nThe organism was changed from 'Bacillus pumilus' to 'Bacillus\naltitudinis' in August 2018.\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##Taxonomic-Update-Statistics-START##\nThis Genome (query) :: GCA_001191605.1\nCurrent Name :: Bacillus altitudinis\nPrevious Name :: Bacillus pumilus\nDate Updated :: 2018-08-29\nAnalysis Type :: Average Nucleotide Identity (ANI)\nAnalysis 1 (A1) :: Query vs. TYPE genome for current name\nA1 Genome (subject) :: GCA_000691145.1\nA1 Name :: Bacillus altitudinis\nA1 ANI :: 98.4776%\nA1 Query Coverage :: 94.47%\nA1 Subject Coverage :: 94.55%\nAnalysis 2 (A2) :: Query vs. TYPE genome for previous name\nA2 Genome (subject) :: GCA_900186955.1\nA2 Name :: Bacillus pumilus\nA2 ANI :: 88.85876%\nA2 Query Coverage :: 91.27%\nA2 Subject Coverage :: 87.15%\n##Taxonomic-Update-Statistics-END##\n\n##Genome-Assembly-Data-START##\nAssembly Method :: Velvet v. V1.2.07\nReference-guided Assembly :: CP007436.1\nGenome Coverage :: 116x\nSequencing Technology :: Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/11/2023 10:48:41\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) :: 3,791\nCDSs (total) :: 3,681\nGenes (coding) :: 3,660\nCDSs (with protein) :: 3,660\nGenes (RNA) :: 110\nrRNAs :: 8, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 8, 8 (5S, 16S, 23S)\ntRNAs :: 81\nncRNAs :: 5\nPseudo Genes (total) :: 21\nCDSs (without protein) :: 21\nPseudo Genes (ambiguous residues) :: 0 of 21\nPseudo Genes (frameshifted) :: 8 of 21\nPseudo Genes (incomplete) :: 13 of 21\n…

sequence
subclass of: SO_0000155
sequence length: 6935
topology: circular
so has quality: SO_0000988
location: 1..6935
location: region:1-6935:1
RO_0002162: 293387

NZ_CP009109
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN02905161
type: BioSample
SIO_000068: biosample

1
title: Genome sequence of a ginger rhizome rot disease pathogen Bacillus pumilus
author: Yuan, Y.
author: Peng, Q.
author: Gao, M.
journal: Unpublished

2
title: Direct Submission
author: Yuan, Y.
author: Peng, Q.
author: Gao, M.
journal: Submitted (30-JUL-2014) Key Laboratory of Agricultural and Environmental Microbiology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuchang Xiaohongshan Zhongqu 44, Wuhan, Hubei 430071, China

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

position:6935:1
position: 6935
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6935:1:source
so part of: sequence
organism: Bacillus altitudinis
mol type: genomic DNA
strain: GR-8
isolation source: Soil
plasmid: pGR8
country: China
collection date: 2012-08-08

293387
type: Taxonomy
SIO_000068: taxonomy

ID12_RS18630
type: Gene
subclass of: SO_0000704
RO_0002162: 293387
locus tag: ID12_RS18630
old locus tag: ID12_19410
so part of: sequence
location: 126..320
location: region:126-320:1
so has part: feature:126-320:1:exon
subclass of: SO_0000010

66364316
type: Gene
SIO_000068: ncbigene

position:126:1
position: 126
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:320:1
position: 320
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:126-320:1:exon

ID12_RS18630
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 293387
locus tag: ID12_RS18630
old locus tag: ID12_19410
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003179376.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSKLSKIILNVFLVGTIFFLGSYFGYKSNGVELQGLLYAGVVSLIGLVVTSTVSLFRKNKSTSM
SIO_010081: ID12_RS18630
subclass of: SO_0000673
so part of: ID12_RS18630
location: 126..320
location: region:126-320:1
so has part: feature:126-320:1:exon

WP_050827708.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:126-320:1:exon

ID12_RS18635
type: Gene
subclass of: SO_0000704
RO_0002162: 293387
locus tag: ID12_RS18635
old locus tag: ID12_19415
so part of: sequence
location: complement(352..1374)
location: region:352-1374:-1
so has part: feature:352-1374:-1:exon
subclass of: SO_0000010

66364317
type: Gene
SIO_000068: ncbigene

position:352:-1
position: 352
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1374:-1
position: 1374
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:352-1374:-1:exon

ID12_RS18635
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 293387
locus tag: ID12_RS18635
old locus tag: ID12_19415
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011255094.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: protein rep
translation: MTYSSESNYSILQDKTATGKKRDWRGKKVRSSLMAAHYEGLEKRTGAPYYGKKAEKVCDCAECLAFRRDNETGRLRLYQAYFCKVRLCPMCAWRRSLKIAYHNKLIVEEANRQYKPAWIFLTLTVKNIEGDDLKQTISDMMKGFNRLMKYKKVDSAVRGYFRALEITKNHEENTYHPHFHVLMPVRTNYFGKNYINQKEWTSLWKRAMKLDYTPIVHVQRVKGKKGIDAEAIEKEVRKEMEEQKAILEISKYPVKDTDVIRGNEVTEENLDTVYYLDDALSARRLIGYGGILKEIHKELNLTDAEDGDLIRIEEDDDEVANETFEVMAHWHVGIKNYIIT
SIO_010081: ID12_RS18635
subclass of: SO_0000673
so part of: ID12_RS18635
location: complement(352..1374)
location: region:352-1374:-1
so has part: feature:352-1374:-1:exon

WP_050827710.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:352-1374:-1:exon

ID12_RS18640
type: Gene
subclass of: SO_0000704
RO_0002162: 293387
locus tag: ID12_RS18640
old locus tag: ID12_19425
so part of: sequence
location: complement(2367..3485)
location: region:2367-3485:-1
so has part: feature:2367-3485:-1:exon
subclass of: SO_0000010

66364318
type: Gene
SIO_000068: ncbigene

position:2367:-1
position: 2367
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3485:-1
position: 3485
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2367-3485:-1:exon

ID12_RS18640
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 293387
locus tag: ID12_RS18640
old locus tag: ID12_19425
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017358755.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: tetratricopeptide repeat protein
translation: MGTIAAPVIGQKINEWYRHIKRLNVTDAEILRNEVKNELDLMEEDEQVVLYFQLMEFRHEQMLEYVNPSKNTVNKADYLRAVEGEGKRLTGIMEYYFNFFRGMYEFSKGEYIKAITFYRYAERKLDKVADELERAEFFFKMAEIFYHMKQTHLSMYYVEQAYHAYKAKSIYQVRLIQCRFVIAGNYDDLVSYEKALPHLKRALQESIALGHDYITTKGLLNLGNCFNKQDDVAKATVYYQRALELGEKIGAKEVVQACYDLAIIFFKQGRKEEALDYCVKGKSYAEKYDDSMFVDLFNVLHELYVTVSPSVEVNQKFDQLLYSRGYPYLEDLALEAGRFYNDIERLDDSVFFYKKMIQVQKLIQRGDFEYDV
SIO_010081: ID12_RS18640
subclass of: SO_0000673
so part of: ID12_RS18640
location: complement(2367..3485)
location: region:2367-3485:-1
so has part: feature:2367-3485:-1:exon

WP_050827711.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2367-3485:-1:exon

ID12_RS18650
type: Gene
subclass of: SO_0000704
RO_0002162: 293387
locus tag: ID12_RS18650
old locus tag: ID12_19440
so part of: sequence
location: 4830..5303
location: region:4830-5303:1
so has part: feature:4830-5303:1:exon
subclass of: SO_0000010

66364319
type: Gene
SIO_000068: ncbigene

position:4830:1
position: 4830
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5303:1
position: 5303
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4830-5303:1:exon

ID12_RS18650
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 293387
locus tag: ID12_RS18650
old locus tag: ID12_19440
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010890180.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF3967 domain-containing protein
translation: MKPETYLSSQDIANKLNVSSVTIRKYAAMLEKNGYNFARDTKGWRQYNESDLSAMEYIYTHSKLSGKSLEEVAKLVATLYRSNLSISDTATPLQDINVADLIQRQEEFNRAILKRLEQFEEQQKKRDENLMLALKESIETKKMIATAQQKKWWQFWK
SIO_010081: ID12_RS18650
subclass of: SO_0000673
so part of: ID12_RS18650
location: 4830..5303
location: region:4830-5303:1
so has part: feature:4830-5303:1:exon

WP_050827715.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4830-5303:1:exon

ID12_RS18655
type: Gene
subclass of: SO_0000704
RO_0002162: 293387
locus tag: ID12_RS18655
old locus tag: ID12_19445
so part of: sequence
location: complement(5726..6130)
location: region:5726-6130:-1
so has part: feature:5726-6130:-1:exon
subclass of: SO_0000010

66364320
type: Gene
SIO_000068: ncbigene

position:5726:-1
position: 5726
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6130:-1
position: 6130
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5726-6130:-1:exon

ID12_RS18655
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 293387
locus tag: ID12_RS18655
old locus tag: ID12_19445
inference: COORDINATES: similar to AA sequence:RefSeq:WP_013354252.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MRTLNTRFKRLLRLREFEFFQVELHDSEKCAYLLFCDQRFSEKGNKVDIYLISDFELSDESYQDVCSFNDDMLEMKHNCSYFMNVVSVKEEFEFDFPFDMLAIRTYVQEILDLVGIEKQLPEFEETDFDYLSQE
SIO_010081: ID12_RS18655
subclass of: SO_0000673
so part of: ID12_RS18655
location: complement(5726..6130)
location: region:5726-6130:-1
so has part: feature:5726-6130:-1:exon

WP_050827716.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5726-6130:-1:exon

ID12_RS19555
type: Gene
subclass of: SO_0000704
RO_0002162: 293387
locus tag: ID12_RS19555
so part of: sequence
location: complement(6147..6626)
location: region:6147-6626:-1
so has part: feature:6147-6626:-1:exon
subclass of: SO_0000010

69984299
type: Gene
SIO_000068: ncbigene

position:6147:-1
position: 6147
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6626:-1
position: 6626
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6147-6626:-1:exon

ID12_RS19555
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 293387
locus tag: ID12_RS19555
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: MSVIFRKLLVYSMIFAFAFTSSILVSSKSASAGADREWVKLDKGYRAGFDEPHEKKTGKWHVHVYKGNKKIASENMDGTKHDGSSLKDAPKSVVKKLKSKSQWDKYKKKQKKLDEARNKVSKYSWWQLVFDPTPIYALAIALGVTFAMFTMAQWKAIIF
SIO_010081: ID12_RS19555
subclass of: SO_0000673
so part of: ID12_RS19555
location: complement(6147..6626)
location: region:6147-6626:-1
so has part: feature:6147-6626:-1:exon

WP_234717190.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6147-6626:-1:exon