Companilactobacillus crustorum strain MN047 plasmid unnamed2, complete sequence.
type: Entry
definition: Companilactobacillus crustorum strain MN047 plasmid unnamed2, complete sequence.
sequence version: NZ_CP017998.1
sequence date: 2023-02-06
sequence: sequence
division: CON
label: NZ_CP017998.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN05893358
keyword: RefSeq
source: Companilactobacillus crustorum
organism: Companilactobacillus crustorum
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Companilactobacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP017998.1.\nBacteria and source DNA available from College of Food Science and\nEngineering Bioresource Lab.\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 :: 2016\nAssembly Method :: RS_HGAP Assembly 3 v. v2.3.0\nGenome Coverage :: 100.0x\nSequencing Technology :: PacBio; hiseq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 02/06/2023 03:07:47\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) :: 2,291\nCDSs (total) :: 2,221\nGenes (coding) :: 2,168\nCDSs (with protein) :: 2,168\nGenes (RNA) :: 70\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 55\nncRNAs :: 3\nPseudo Genes (total) :: 53\nCDSs (without protein) :: 53\nPseudo Genes (ambiguous residues) :: 0 of 53\nPseudo Genes (frameshifted) :: 25 of 53\nPseudo Genes (incomplete) :: 23 of 53\nPseudo Genes (internal stop) :: 12 of 53\nPseudo Genes (multiple problems) :: 7 of 53\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 8220
topology: circular
so has quality: SO_0000988
location: 1..8220
location: region:1-8220:1
RO_0002162: 392416

NZ_CP017998
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN05893358
type: BioSample
SIO_000068: biosample

1
title: Complete genome suquence of Lactobacillus crustorum MN047, a probiotic strain originated from koumiss of China
author: Yi, L.
author: Lv, X.
journal: Unpublished

2
title: Direct Submission
author: Yi, L.
author: Lv, X.
journal: Submitted (03-NOV-2016) College of Food Science and Engineering, Northwest A&F University, Xinong Road NO.22 of Yangling, Xi'an, Shannxi 712100, China

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

position:8220:1
position: 8220
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8220:1:source
so part of: sequence
organism: Companilactobacillus crustorum
mol type: genomic DNA
strain: MN047
host: koumiss
plasmid: unnamed2
country: China: Changji city, Xinjiang Uygur Autonomous Region
collection date: 2012-07

392416
type: Taxonomy
SIO_000068: taxonomy

BI355_RS11390
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11390
old locus tag: BI355_2275
so part of: sequence
location: 1..936
location: region:1-936:1
so has part: feature:1-936:1:exon
subclass of: SO_0000010

position:936:1
position: 936
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-936:1:exon

BI355_RS11390
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11390
old locus tag: BI355_2275
inference: COORDINATES: similar to AA sequence:RefSeq:WP_016526818.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiation protein
translation: MSNELVKYDPELNTIPLRRFTPVEMNLFFSIVSRMRDKGDDTVRFTFDQLKELSAYKPTANNRFIDDIQSTYQKILGLSFGSRSKDGLDREMFVMFTRFEIKGSAEVPYVDIQIYPKALKLLNNLESWVRYALAEFRDLKSSYAKTMFRLLKQFRTTGYAYFSKSDFFELLDIPQSYWNKPANVESRVIQPIKEELTPLFRGLTIRKKYGKGRGKPVIGYSFTWKSEKKNANDFSQGQFQDERQKLFNIQHNSELTDHQKWRAIDKVKGLTLGSTEKQALVDKQAEHDKRIRDQARQEALAELQKGFGNHA
SIO_010081: BI355_RS11390
subclass of: SO_0000673
so part of: BI355_RS11390
location: 1..936
location: region:1-936:1
so has part: feature:1-936:1:exon

WP_075888353.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-936:1:exon

BI355_RS11395
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11395
old locus tag: BI355_2276
so part of: sequence
location: 929..1462
location: region:929-1462:1
so has part: feature:929-1462:1:exon
subclass of: SO_0000010

position:929:1
position: 929
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1462:1
position: 1462
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:929-1462:1:exon

BI355_RS11395
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11395
old locus tag: BI355_2276
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: DUF536 domain-containing protein
translation: MPKTIKELADEFDVSKQAIRKKLDANFRANYVQTVTRNGVQTLVITNSGYLLLKQHFSGGNNQKPDGGTFTSNTGNRNQDTIKLLNQQLTIKDSQIKEKDAQLKSMQKLLDQSQQLQLMAEKKIEEFKSLLLKKMTLLPPIQKVKIILQTPKMLGGIFGKNLKVPLILKTCSTNLKS
SIO_010081: BI355_RS11395
subclass of: SO_0000673
so part of: BI355_RS11395
location: 929..1462
location: region:929-1462:1
so has part: feature:929-1462:1:exon

WP_156866639.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:929-1462:1:exon

BI355_RS11400
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11400
old locus tag: BI355_2277
so part of: sequence
location: 1556..2317
location: region:1556-2317:1
so has part: feature:1556-2317:1:exon
subclass of: SO_0000010

position:1556:1
position: 1556
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2317:1
position: 2317
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1556-2317:1:exon

BI355_RS11400
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11400
old locus tag: BI355_2277
inference: COORDINATES: protein motif:HMM:NF013226.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: prenyltransferase
translation: MDIPTRRQQFKALVQAQSTVISALPYLLGCAFTYFYYDHFNIGDAARLFIAVICFHLAVNGHNQYTDYRRFNASGSVSENNIIAKFKISLLWARLIIGSLVLLSAVIGIYLTFKTGWPLLLIGLLSFLIGYAYSGGPHPILKTPLGEPASGITMGYNITLLAIYVNIYNSPQFDPFFWLKGLIVALPAILVISNVMLGNNICDRDEDIQIGKHTLVYYIGRSAAMKVLIACYVLSYIMIIVAVVLHYLSVLTC
SIO_010081: BI355_RS11400
subclass of: SO_0000673
so part of: BI355_RS11400
location: 1556..2317
location: region:1556-2317:1
so has part: feature:1556-2317:1:exon

WP_232230875.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1556-2317:1:exon

BI355_RS11860
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11860
pseudo: true
so part of: sequence
location: 2582..>2802
location: region:2582-2802:1
so has part: feature:2582-2802:1:exon
subclass of: SO_0000010

position:2582:1
position: 2582
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2802:1
position: 2802
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2582-2802:1:exon

BI355_RS11860
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11860
inference: COORDINATES: similar to AA sequence:RefSeq:WP_076611862.1
note: frameshifted; 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: transposase
SIO_010081: BI355_RS11860
subclass of: SO_0000673
so part of: BI355_RS11860
location: 2582..>2802
location: region:2582-2802:1
so has part: feature:2582-2802:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:2582-2802:1:exon

BI355_RS11410
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11410
pseudo: true
so part of: sequence
location: complement(<2905..3251)
location: region:2905-3251:-1
so has part: feature:2905-3251:-1:exon
subclass of: SO_0000010

position:2905:-1
position: 2905
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

position:3251:-1
position: 3251
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2905-3251:-1:exon

BI355_RS11410
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11410
inference: COORDINATES: similar to AA sequence:RefSeq:WP_013727908.1
note: frameshifted; 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: transposase
SIO_010081: BI355_RS11410
subclass of: SO_0000673
so part of: BI355_RS11410
location: complement(<2905..3251)
location: region:2905-3251:-1
so has part: feature:2905-3251:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:2905-3251:-1:exon

BI355_RS11415
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11415
pseudo: true
so part of: sequence
location: 3568..>4150
location: region:3568-4150:1
so has part: feature:3568-4150:1:exon
subclass of: SO_0000010

position:3568:1
position: 3568
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4150:1
position: 4150
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3568-4150:1:exon

BI355_RS11415
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11415
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017369153.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
note: frameshifted; 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: tyrosine-type recombinase/integrase
SIO_010081: BI355_RS11415
subclass of: SO_0000673
so part of: BI355_RS11415
location: 3568..>4150
location: region:3568-4150:1
so has part: feature:3568-4150:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:3568-4150:1:exon

BI355_RS11420
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11420
old locus tag: BI355_2282
so part of: sequence
location: 4340..4618
location: region:4340-4618:1
so has part: feature:4340-4618:1:exon
subclass of: SO_0000010

position:4340:1
position: 4340
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4618:1
position: 4618
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4340-4618:1:exon

BI355_RS11420
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11420
old locus tag: BI355_2282
inference: COORDINATES: similar to AA sequence:RefSeq:WP_007472881.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF2316 family protein
translation: MSLNFIERINTSKELRQNLKLSHLTIEHVAIDLNTSVQKINQILELDHVSPEDPWILKEYLSNKLQSQGIIGYPYSKLVGDFRDYWFLDTKK
SIO_010081: BI355_RS11420
subclass of: SO_0000673
so part of: BI355_RS11420
location: 4340..4618
location: region:4340-4618:1
so has part: feature:4340-4618:1:exon

WP_075888354.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4340-4618:1:exon

BI355_RS11425
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11425
old locus tag: BI355_2283
so part of: sequence
location: complement(4950..6284)
location: region:4950-6284:-1
so has part: feature:4950-6284:-1:exon
subclass of: SO_0000010

position:4950:-1
position: 4950
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6284:-1
position: 6284
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4950-6284:-1:exon

BI355_RS11425
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11425
old locus tag: BI355_2283
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014333939.1
GO function: GO:0016491 - oxidoreductase activity [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: FAD-dependent oxidoreductase
translation: MKHFSNIIIGFGKAGKTLAGTLAKHGEEVLIIEKDPNMYGGTCINVACLPTKNMIINAHRGIEYEVALKKKNALTAMLRNKNYHKVADLQEATVLTATAEFLDDHTVRVSDNSGQETLIADRIFINTGATPIWPNIDGLPASKHVYSSTDLLVKDKQLKELVILGSGPIGLEFASMYAQFGSHVTIIDKSSKILGHFEPEIAEQTKNDLEEDGVSFLLESNLTGVNDTLNGVTLTISTPKGIKNIQADGLLVATGRKANVTDLHLERTSIKTGSHGEILVNDILETDAKDVYALGDVTGGPQFTYISLDDWRIMANHLYGDKTRSRLNRPVFANTIFLNPAISSVGKTEAQLNEAGIDYKVLKMPAASVPKTQVIGNPRGNYKALIDPQTHQILGTTIYAEESFETINIISLAMQNHLSAETLRDQIYTHPTMTEALNDLFDQI
SIO_010081: BI355_RS11425
subclass of: SO_0000673
so part of: BI355_RS11425
location: complement(4950..6284)
location: region:4950-6284:-1
so has part: feature:4950-6284:-1:exon

WP_075888355.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4950-6284:-1:exon

BI355_RS11430
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11430
old locus tag: BI355_2284
pseudo: true
so part of: sequence
location: <6572..6943
location: region:6572-6943:1
so has part: feature:6572-6943:1:exon
subclass of: SO_0000010

position:6572:1
position: 6572
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:6943:1
position: 6943
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6572-6943:1:exon

BI355_RS11430
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11430
old locus tag: BI355_2284
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004906024.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0015074 - DNA integration [Evidence IEA]; GO:0006310 - DNA recombination [Evidence IEA]
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: tyrosine-type recombinase/integrase
SIO_010081: BI355_RS11430
subclass of: SO_0000673
so part of: BI355_RS11430
location: <6572..6943
location: region:6572-6943:1
so has part: feature:6572-6943:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:6572-6943:1:exon

BI355_RS11435
type: Gene
subclass of: SO_0000704
RO_0002162: 392416
locus tag: BI355_RS11435
old locus tag: BI355_2285
so part of: sequence
location: 7297..7509
location: region:7297-7509:1
so has part: feature:7297-7509:1:exon
subclass of: SO_0000010

position:7297:1
position: 7297
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7509:1
position: 7509
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7297-7509:1:exon

BI355_RS11435
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 392416
locus tag: BI355_RS11435
old locus tag: BI355_2285
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: MLGVIKMDEKKVLKPIDEMLADPWQVDIQELFEASVNEPDEIKKNLYDSLDTYILQKRQEDISNLPGFVI
SIO_010081: BI355_RS11435
subclass of: SO_0000673
so part of: BI355_RS11435
location: 7297..7509
location: region:7297-7509:1
so has part: feature:7297-7509:1:exon

WP_075888356.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7297-7509:1:exon