Lactiplantibacillus paraplantarum strain FL-8 plasmid unnamed1, complete sequence.
type: Entry
definition: Lactiplantibacillus paraplantarum strain FL-8 plasmid unnamed1, complete sequence.
sequence version: NZ_CP118746.1
sequence date: 2023-04-07
sequence: sequence
division: CON
label: NZ_CP118746.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN33411785
keyword: RefSeq
source: Lactiplantibacillus paraplantarum
organism: Lactiplantibacillus paraplantarum
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Lactiplantibacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP118746.1.\nBacteria and source DNA available from Jihong Wu 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 :: 31-OCT-2022\nAssembly Method :: Canu v. v1.5\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 460.0x\nSequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/08/2023 16:01:15\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) :: 3,040\nCDSs (total) :: 2,953\nGenes (coding) :: 2,935\nCDSs (with protein) :: 2,935\nGenes (RNA) :: 87\nrRNAs :: 6, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 5, 5 (5S, 16S, 23S)\ntRNAs :: 67\nncRNAs :: 4\nPseudo Genes (total) :: 18\nCDSs (without protein) :: 18\nPseudo Genes (ambiguous residues) :: 0 of 18\nPseudo Genes (frameshifted) :: 10 of 18\nPseudo Genes (incomplete) :: 10 of 18\nPseudo Genes (internal stop) :: 3 of 18\nPseudo Genes (multiple problems) :: 5 of 18\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 8916
topology: circular
so has quality: SO_0000988
location: 1..8916
location: region:1-8916:1
RO_0002162: 60520

NZ_CP118746
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN33411785
type: BioSample
SIO_000068: biosample

1
title: Comparative genomics and fermentation flavor characterization of five lactic acid bacteria reveal flavor biosynthesis metabolic pathways in fermented muskmelon puree
author: Yuan, L.
author: Li, M.
author: Xu, X.
author: Lao, F.
author: Wu, J.
journal: Unpublished

2
title: Direct Submission
author: Yuan, L.
author: Li, M.
author: Xu, X.
author: Lao, F.
author: Wu, J.
journal: Submitted (22-FEB-2023) College of Food Science and Nutritional Engineering, China Agricultural University, No. 17, Tsinghua East Road, Haidian District, Beijing 100083, China

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

position:8916:1
position: 8916
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8916:1:source
so part of: sequence
organism: Lactiplantibacillus paraplantarum
mol type: genomic DNA
strain: FL-8
isolation source: Fermented pepper
plasmid: unnamed1
country: China: Beijing
collection date: 2020-01-01

60520
type: Taxonomy
SIO_000068: taxonomy

PWO93_RS15170
type: Gene
subclass of: SO_0000704
RO_0002162: 60520
locus tag: PWO93_RS15170
old locus tag: PWO93_15170
so part of: sequence
location: 1..468
location: region:1-468:1
so has part: feature:1-468:1:exon
subclass of: SO_0000010

79808895
type: Gene
SIO_000068: ncbigene

position:468:1
position: 468
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-468:1:exon

PWO93_RS15170
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 60520
locus tag: PWO93_RS15170
old locus tag: PWO93_15170
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: MKYTKTKAVLNQLVADLSQMSMIIHQTHWYMRGPNFLKLHPLMDEFMEEIDSQLDVISERLIALDGSPYSTLKEMVENTKIQDWPGEWDKTTPERLAHLVDGYRYLEDLYQHGIEVSDVEKDFSTQDIFIGLKTAIEKKIWMIQAELGSAPEIDE
SIO_010081: PWO93_RS15170
subclass of: SO_0000673
so part of: PWO93_RS15170
location: 1..468
location: region:1-468:1
so has part: feature:1-468:1:exon

WP_015474713.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-468:1:exon

PWO93_RS15175
type: Gene
subclass of: SO_0000704
RO_0002162: 60520
locus tag: PWO93_RS15175
old locus tag: PWO93_15175
pseudo: true
so part of: sequence
location: complement(<510..599)
location: region:510-599:-1
so has part: feature:510-599:-1:exon
subclass of: SO_0000010

79808896
type: Gene
SIO_000068: ncbigene

position:510:-1
position: 510
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

position:599:-1
position: 599
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:510-599:-1:exon

PWO93_RS15175
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 60520
locus tag: PWO93_RS15175
old locus tag: PWO93_15175
inference: COORDINATES: similar to AA sequence:RefSeq:WP_053338758.1
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: IS30 family transposase
SIO_010081: PWO93_RS15175
subclass of: SO_0000673
so part of: PWO93_RS15175
location: complement(<510..599)
location: region:510-599:-1
so has part: feature:510-599:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:510-599:-1:exon

PWO93_RS15180
type: Gene
subclass of: SO_0000704
RO_0002162: 60520
locus tag: PWO93_RS15180
old locus tag: PWO93_15180
so part of: sequence
location: 825..1328
location: region:825-1328:1
so has part: feature:825-1328:1:exon
subclass of: SO_0000010

79808897
type: Gene
SIO_000068: ncbigene

position:825:1
position: 825
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1328:1
position: 1328
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:825-1328:1:exon

PWO93_RS15180
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 60520
locus tag: PWO93_RS15180
old locus tag: PWO93_15180
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003646092.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF536 domain-containing protein
translation: MNNNERLYKISEIADIAKVNKTKVWRYIRDNNISERSMKGNAKLYSEHTKDVIIKAFSSESVHLATETKADTSRILLEQIDILKGELERKNDQLDKMQSLLDQQQQLNLSTNRQNEKLLDTTTNNTPSQDDRPLQNDDTDVLKPTEGNYEGKETKTPKKGLFGWLRR
SIO_010081: PWO93_RS15180
subclass of: SO_0000673
so part of: PWO93_RS15180
location: 825..1328
location: region:825-1328:1
so has part: feature:825-1328:1:exon

WP_033609920.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:825-1328:1:exon

PWO93_RS15185
type: Gene
subclass of: SO_0000704
RO_0002162: 60520
locus tag: PWO93_RS15185
old locus tag: PWO93_15185
so part of: sequence
location: complement(2801..3013)
location: region:2801-3013:-1
so has part: feature:2801-3013:-1:exon
subclass of: SO_0000010

79808898
type: Gene
SIO_000068: ncbigene

position:2801:-1
position: 2801
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3013:-1
position: 3013
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2801-3013:-1:exon

PWO93_RS15185
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 60520
locus tag: PWO93_RS15185
old locus tag: PWO93_15185
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: MLGVIKMDEKKVLKTIDEMLADPWQVDIQELFEASFNEPDEIKKNLYDSLYTYVLQKRQEDIINRPGFVI
SIO_010081: PWO93_RS15185
subclass of: SO_0000673
so part of: PWO93_RS15185
location: complement(2801..3013)
location: region:2801-3013:-1
so has part: feature:2801-3013:-1:exon

WP_010625611.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2801-3013:-1:exon

PWO93_RS15190
type: Gene
subclass of: SO_0000704
RO_0002162: 60520
locus tag: PWO93_RS15190
old locus tag: PWO93_15190
so part of: sequence
location: complement(3889..4920)
location: region:3889-4920:-1
so has part: feature:3889-4920:-1:exon
subclass of: SO_0000010

79808899
type: Gene
SIO_000068: ncbigene

position:3889:-1
position: 3889
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4920:-1
position: 4920
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3889-4920:-1:exon

PWO93_RS15190
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 60520
locus tag: PWO93_RS15190
old locus tag: PWO93_15190
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010774077.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSEFEIALPSNQDTDIDVTNQGLYNYDFNSYSLAPLQKAAGLSLSEKIRKSVFSHISEAKLIEELSNKGEVEYVAKLSDYAKEKLKSGEWTLGIRKKTGETYAVIKDVSTGKSQSFVTLDKKVVQNLGNLPELSAIQGQLADIVEKIESLNRLVERVEQGQYNDRYAGFFSARQQVVEALSADDETVKKELLISAVKTNNDTIAKLMLAIHHDALAFIDTKIKPKEAQRIDNHLQNSIGYLNSTVQLNLVAHTALGEQQALIATLMNYKSFIGQTLLEEVGDTERTLAWQIDNAHKGMDGKFDEISLDVTDRITYLVDEVINKRSGEQDYERIETEKMHDAEL
SIO_010081: PWO93_RS15190
subclass of: SO_0000673
so part of: PWO93_RS15190
location: complement(3889..4920)
location: region:3889-4920:-1
so has part: feature:3889-4920:-1:exon

WP_070083732.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3889-4920:-1:exon

PWO93_RS15195
type: Gene
subclass of: SO_0000704
RO_0002162: 60520
locus tag: PWO93_RS15195
old locus tag: PWO93_15195
pseudo: true
so part of: sequence
location: <5014..5106
location: region:5014-5106:1
so has part: feature:5014-5106:1:exon
subclass of: SO_0000010

79808900
type: Gene
SIO_000068: ncbigene

position:5014:1
position: 5014
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:5106:1
position: 5106
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5014-5106:1:exon

PWO93_RS15195
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 60520
locus tag: PWO93_RS15195
old locus tag: PWO93_15195
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010625626.1
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: type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family
SIO_010081: PWO93_RS15195
subclass of: SO_0000673
so part of: PWO93_RS15195
location: <5014..5106
location: region:5014-5106:1
so has part: feature:5014-5106:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:5014-5106:1:exon

PWO93_RS15200
type: Gene
subclass of: SO_0000704
RO_0002162: 60520
locus tag: PWO93_RS15200
old locus tag: PWO93_15200
so part of: sequence
location: 5471..7768
location: region:5471-7768:1
so has part: feature:5471-7768:1:exon
subclass of: SO_0000010

79808901
type: Gene
SIO_000068: ncbigene

position:5471:1
position: 5471
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7768:1
position: 7768
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5471-7768:1:exon

PWO93_RS15200
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 60520
locus tag: PWO93_RS15200
old locus tag: PWO93_15200
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014271901.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF1906 domain-containing protein
translation: MDEMVKETQVWLNKTYGKVSGFGKVPEDGNTGWNTVYGLTRALQHELGITDLVDNFGPSTAAKWDTQFANKVKTGFKHNVVKIIQGGFWCKGINPEDFTGEFTTNTAAAVVELKKDAGIKDTSANVNSDIMKALLTMSAFVLVPGGDAKIRSMQQQLNHDYQAYTGILPCDGIYQRDTNTALIYALQSVEGMDTGTANGYYGPGTINKTPTVNSGATGAIVKIIQYGLYVNGFYSGAFNGQFTQNVADGIVSFRKFMKLPPYTSTADLTVIKGLLTSNGNTNRSSDGVDMATQITSAATAKSLKAAGYNIIGRYLTGSVGTGADKRDKNLTNTEVKLLLDANLKIFPIYEDGGYEESYFNSKQGFADASIAVNTARQLGLPSGTVIYFAVDVDIQDGNMSSTVVPYFEGITGIIGSTEYKAGIYGTRNACLHVNHLVKYSFVADMSSGWSGNLGFKMPENWSFDQFNEFTGASTGIDMDQVAVSGKDNGVSKVTKVNINPNAAFFTQLQQVEDQAYSYISGESSSTPAEQLVTQFYRQFSYSSPSWAPLAGGLNTSWLAFANSALHVSKESDFETLYDSTTGIKIGLPHMMASLNALLFWGEPQSASGIQDLGGWCGDLLTSIEDAHLNQKKYGSFYESITAYVGNKGQFGREDLVDDLDALNVYSTIHSQNNQTISKIIKTYYTGNESSVRFNSYLSNRFDDDLDSLQNDTYTLLKGGTGSWGAAYKTALLAFKKFKLQKYPSYTDSEAKDAAKAFRKLIEQNA
SIO_010081: PWO93_RS15200
subclass of: SO_0000673
so part of: PWO93_RS15200
location: 5471..7768
location: region:5471-7768:1
so has part: feature:5471-7768:1:exon

WP_014271901.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5471-7768:1:exon