Levilactobacillus suantsaii strain CBA3634 plasmid pCBA3634-05.
type: Entry
definition: Levilactobacillus suantsaii strain CBA3634 plasmid pCBA3634-05.
sequence version: NZ_CP059608.1
sequence date: 2022-12-08
sequence: sequence
division: CON
label: NZ_CP059608.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN15659520
keyword: RefSeq
source: Levilactobacillus suantsaii
organism: Levilactobacillus suantsaii
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Levilactobacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP059608.1.\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 Date :: DEC-2019\nAssembly Method :: HGAP v. 3\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 273.0x\nSequencing Technology :: PacBio RSII; Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/08/2022 06:34:17\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) :: 2,568\nCDSs (total) :: 2,477\nGenes (coding) :: 2,405\nCDSs (with protein) :: 2,405\nGenes (RNA) :: 91\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 70\nncRNAs :: 3\nPseudo Genes (total) :: 72\nCDSs (without protein) :: 72\nPseudo Genes (ambiguous residues) :: 0 of 72\nPseudo Genes (frameshifted) :: 36 of 72\nPseudo Genes (incomplete) :: 21 of 72\nPseudo Genes (internal stop) :: 23 of 72\nPseudo Genes (multiple problems) :: 8 of 72\nCRISPR Arrays :: 3\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 7402
topology: linear
so has quality: SO_0000987
location: 1..7402
location: region:1-7402:1
RO_0002162: 2292255

NZ_CP059608
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN15659520
type: BioSample
SIO_000068: biosample

1
title: Culture-independent analysis of the bacterial communities in Chinese fermented vegetables and genomic analysis of lactic acid bacteria
author: Roh, S.W.
author: Song, H.S.
journal: Unpublished

2
title: Direct Submission
author: Roh, S.W.
author: Song, H.S.
journal: Submitted (28-JUL-2020) Microbiology and Functionality Research Group, World Institute of Kimchi, 86, Kimchi-ro, Nam-gu, Gwangju, Gwangju 61755, South Korea

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

position:7402:1
position: 7402
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-7402:1:source
so part of: sequence
organism: Levilactobacillus suantsaii
mol type: genomic DNA
strain: CBA3634
plasmid: pCBA3634-05
country: South Korea
collection date: 2019-07

2292255
type: Taxonomy
SIO_000068: taxonomy

H3M12_RS12725
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12725
old locus tag: H3M12_12725
pseudo: true
so part of: sequence
location: <9..332
location: region:9-332:1
so has part: feature:9-332:1:exon
subclass of: SO_0000010

position:9:1
position: 9
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:332:1
position: 332
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:9-332:1:exon

H3M12_RS12725
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12725
old locus tag: H3M12_12725
inference: COORDINATES: similar to AA sequence:RefSeq:WP_002340715.1
note: incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: hypothetical protein
SIO_010081: H3M12_RS12725
subclass of: SO_0000673
so part of: H3M12_RS12725
location: <9..332
location: region:9-332:1
so has part: feature:9-332:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:9-332:1:exon

H3M12_RS12730
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12730
old locus tag: H3M12_12730
so part of: sequence
location: 708..920
location: region:708-920:1
so has part: feature:708-920:1:exon
subclass of: SO_0000010

position:708:1
position: 708
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:920:1
position: 920
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:708-920:1:exon

H3M12_RS12730
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12730
old locus tag: H3M12_12730
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010620841.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MLGVIKMDEKKVLKTIDEMLADPWQVDIQELFEASVNEPDEIKKNLYDSLYTYVLQKRQEDIINRPGFVI
SIO_010081: H3M12_RS12730
subclass of: SO_0000673
so part of: H3M12_RS12730
location: 708..920
location: region:708-920:1
so has part: feature:708-920:1:exon

WP_054737378.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:708-920:1:exon

H3M12_RS12735
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12735
old locus tag: H3M12_12735
so part of: sequence
location: 1630..2565
location: region:1630-2565:1
so has part: feature:1630-2565:1:exon
subclass of: SO_0000010

position:1630:1
position: 1630
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2565:1
position: 2565
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1630-2565:1:exon

H3M12_RS12735
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12735
old locus tag: H3M12_12735
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010625604.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MSNELVKYDPELNTIPLRRFTPVEMNLFFSVVSRMRDKGDDTVRFTFDQLKELSAYKPTANNRFIDDIQSTYQKILGLRFGSRSKDGLDREMFVMFTRFEIKGSADVPYVDIQIYPKALKLLNNLESWVRYALTEFRDLKSSYAKTTFRILKQFRTTGYAYFSKNDFFELLDIPQSYWSKPANVESRVIRPIKEELTPLFRGLTIRKKYGKGRGKPVIGYTFTWKPERKDANDFSQGKFQDERQKLFNIQNNGELTEQEKWRATDKVKGLPLGSTEKQILAERQIEHDKTIRDQTRQEMLSELRKGFGKHA
SIO_010081: H3M12_RS12735
subclass of: SO_0000673
so part of: H3M12_RS12735
location: 1630..2565
location: region:1630-2565:1
so has part: feature:1630-2565:1:exon

WP_063285835.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1630-2565:1:exon

H3M12_RS12740
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12740
old locus tag: H3M12_12740
pseudo: true
so part of: sequence
location: 2558..>2812
location: region:2558-2812:1
so has part: feature:2558-2812:1:exon
subclass of: SO_0000010

position:2558:1
position: 2558
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2812:1
position: 2812
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2558-2812:1:exon

H3M12_RS12740
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12740
old locus tag: H3M12_12740
inference: COORDINATES: similar to AA sequence:RefSeq:WP_005918556.1
note: incomplete; partial in the middle of a contig; missing C-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: DUF536 domain-containing protein
SIO_010081: H3M12_RS12740
subclass of: SO_0000673
so part of: H3M12_RS12740
location: 2558..>2812
location: region:2558-2812:1
so has part: feature:2558-2812:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:2558-2812:1:exon

H3M12_RS12745
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12745
old locus tag: H3M12_12745
pseudo: true
so part of: sequence
location: <2823..3437
location: region:2823-3437:1
so has part: feature:2823-3437:1:exon
subclass of: SO_0000010

position:2823:1
position: 2823
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:3437:1
position: 3437
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2823-3437:1:exon

H3M12_RS12745
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12745
old locus tag: H3M12_12745
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003639480.1
note: catalyzes the formation of 5-phospho-alpha-D-ribose 1-diphosphate and nicotinate from nicotinate D-ribonucleotide and diphosphate; incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology.
pseudo: true
codon start: 1
transl table: 11
product: nicotinate phosphoribosyltransferase
SIO_010081: H3M12_RS12745
subclass of: SO_0000673
so part of: H3M12_RS12745
location: <2823..3437
location: region:2823-3437:1
so has part: feature:2823-3437:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:2823-3437:1:exon

H3M12_RS12750
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12750
old locus tag: H3M12_12750
so part of: sequence
location: complement(3541..4212)
location: region:3541-4212:-1
so has part: feature:3541-4212:-1:exon
subclass of: SO_0000010

position:3541:-1
position: 3541
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4212:-1
position: 4212
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3541-4212:-1:exon

H3M12_RS12750
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12750
old locus tag: H3M12_12750
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003581839.1
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: TetR/AcrR family transcriptional regulator
translation: MERSRIRDYFQQDLSQNETIPPKQRAILQASLDLFAEKGFDQTSTSDIAQRAGVAEGTVYRRYKTKAALRDAILAPIAAHIVPILASDFSEDKLRQRYPSLQAFVTAIFTDRVAFAKANVKELKVIFEMAAFDAERREQLLSQIAPKMVKQMGSVINQLKADHLIVDWPNDLILQSLLSQLFGYLARLMLELPGTEIEREQAYLITVMTKILTPGEHDQITGQ
SIO_010081: H3M12_RS12750
subclass of: SO_0000673
so part of: H3M12_RS12750
location: complement(3541..4212)
location: region:3541-4212:-1
so has part: feature:3541-4212:-1:exon

WP_168850516.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3541-4212:-1:exon

H3M12_RS12755
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12755
old locus tag: H3M12_12755
so part of: sequence
location: complement(4217..5464)
location: region:4217-5464:-1
so has part: feature:4217-5464:-1:exon
subclass of: SO_0000010

position:4217:-1
position: 4217
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5464:-1
position: 5464
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4217-5464:-1:exon

H3M12_RS12755
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12755
old locus tag: H3M12_12755
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014975085.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ABC transporter permease
translation: MRTMAIVRRVFKQMLRDKRTLALMFLAPLLIMTLMYFLFQNNTTQLASLGVHHVDQSVVNVIDTKNVTIHHYDSSQARKMIKQHDLDGYLTQKNGQLTITYSNSNPTNTSLIKASLQSGLVKLKIKTLVTVTKKQRAALESQQAALKKLTAAQTQATVTKLKTAIAQAQARGDQATAEKLQKQLKQATATTSSSTQSAKATSYTTKSHYIYGSSDSTFFESFLPAFLGFFVFFFVFLISGVSLLNERTTGTLSRLLATPIRRSEIIMGYLIGYGGFAIIQTVLTVVFTITVFKIHLVGSIWLVFLTNLLLALVALTLGIFISTFANSEFQMIQFIPLIVVPQIFFAGLVPVDGMASWLQAIAHIMPLYYGANALTAVVTKGAGLGDIGVNLLILVGFMVVLTMLNIVGMKRYRKV
SIO_010081: H3M12_RS12755
subclass of: SO_0000673
so part of: H3M12_RS12755
location: complement(4217..5464)
location: region:4217-5464:-1
so has part: feature:4217-5464:-1:exon

WP_182151163.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4217-5464:-1:exon

H3M12_RS12760
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12760
old locus tag: H3M12_12760
so part of: sequence
location: complement(5442..6185)
location: region:5442-6185:-1
so has part: feature:5442-6185:-1:exon
subclass of: SO_0000010

position:5442:-1
position: 5442
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6185:-1
position: 6185
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5442-6185:-1:exon

H3M12_RS12760
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12760
old locus tag: H3M12_12760
inference: COORDINATES: similar to AA sequence:RefSeq:WP_015825836.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ABC transporter ATP-binding protein
translation: MATDYVIAKQVSKHFGHQQVLNQIDLTLPAGMIYGLIGPSGAGKTTLIKSILGMEAVDSGTVKVMDTVMPNRAVMAQVGYMAQSDALYETLTARENLTLFGQLMSVPKIKLAQMIDYAAGLVDLTSQLDKRVSGYSGGMKRRLSLAIALIQDPQLLILDEPTVGIDPELRQQIWTELNKLKDTGKSMLVTTHVMDEAERCDYLMLIRHGIALAEGTPAALKQQYAVDTIEQVFLKAGRMQDANDGNR
SIO_010081: H3M12_RS12760
subclass of: SO_0000673
so part of: H3M12_RS12760
location: complement(5442..6185)
location: region:5442-6185:-1
so has part: feature:5442-6185:-1:exon

WP_003581836.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5442-6185:-1:exon

H3M12_RS12765
type: Gene
subclass of: SO_0000704
RO_0002162: 2292255
locus tag: H3M12_RS12765
old locus tag: H3M12_12765
so part of: sequence
location: complement(6432..6899)
location: region:6432-6899:-1
so has part: feature:6432-6899:-1:exon
subclass of: SO_0000010

position:6432:-1
position: 6432
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6899:-1
position: 6899
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6432-6899:-1:exon

H3M12_RS12765
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 2292255
locus tag: H3M12_RS12765
old locus tag: H3M12_12765
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003639769.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DNA starvation/stationary phase protection protein
translation: MKYTKTKAVLNQLVADLSQMSMIIHQTHWYMRGPNFLKLHPLMDEFMEEIDSQLDVISERLIALDGSPYSTLKEMAENTKIQDWPGEWDKTTPERLAHLVDGYRYLEDLYQHGIEVSDVEKDFSTQDIFIGLKTAIEKKIWMIQAELGSAPEIDE
SIO_010081: H3M12_RS12765
subclass of: SO_0000673
so part of: H3M12_RS12765
location: complement(6432..6899)
location: region:6432-6899:-1
so has part: feature:6432-6899:-1:exon

WP_003587210.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6432-6899:-1:exon