Lentilactobacillus hilgardii strain FLUB plasmid unnamed4.
type: Entry
definition: Lentilactobacillus hilgardii strain FLUB plasmid unnamed4.
sequence version: NZ_CP047125.1
sequence date: 2022-12-29
sequence: sequence
division: CON
label: NZ_CP047125.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN13567894
keyword: RefSeq
source: Lentilactobacillus hilgardii
organism: Lentilactobacillus hilgardii
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Lentilactobacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP047125.1.\nBacteria and source DNA available from Department of Biotechnology,\nMicrobiology and Human Nutrition, University of Life Sciences in\nLublin.\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 :: Newbler v. v3.0; SPAdes v. v3.11.1\nAssembly Name :: FLUB\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 100.0x\nSequencing Technology :: Illumina; Oxford Nanopore MiniION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/24/2022 02:12:24\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;\n repeat_region\nGenes (total) :: 3,049\nCDSs (total) :: 2,970\nGenes (coding) :: 2,935\nCDSs (with protein) :: 2,935\nGenes (RNA) :: 79\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 61\nncRNAs :: 3\nPseudo Genes (total) :: 35\nCDSs (without protein) :: 35\nPseudo Genes (ambiguous residues) :: 0 of 35\nPseudo Genes (frameshifted) :: 17 of 35\nPseudo Genes (incomplete) :: 22 of 35\nPseudo Genes (internal stop) :: 6 of 35\nPseudo Genes (multiple problems) :: 8 of 35\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##

sequence
subclass of: SO_0000155
sequence length: 6896
topology: linear
so has quality: SO_0000987
location: 1..6896
location: region:1-6896:1
RO_0002162: 1588

NZ_CP047125
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN13567894
type: BioSample
SIO_000068: biosample

1
title: Lactobacillus hilgardii FLUB
author: Gustaw, K.
journal: Unpublished

2
title: Direct Submission
author: Gustaw, K.
journal: Submitted (16-DEC-2019) Department of Biotechnology, Microbiology and Human Nutrition, University of Life Sciences in Lublin, Akademicka 13, Lublin 20-950, Poland

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

position:6896:1
position: 6896
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-6896:1:source
so part of: sequence
organism: Lentilactobacillus hilgardii
mol type: genomic DNA
strain: FLUB
isolation source: mead
plasmid: unnamed4
country: Poland: Lublin
collection date: 2018-10-10

1588
type: Taxonomy
SIO_000068: taxonomy

GQR93_RS15145
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15145
old locus tag: GQR93_15145
pseudo: true
so part of: sequence
location: complement(<1..276)
location: region:1-276:-1
so has part: feature:1-276:-1:exon
subclass of: SO_0000010

69059696
type: Gene
SIO_000068: ncbigene

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

position:276:-1
position: 276
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-276:-1:exon

GQR93_RS15145
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15145
old locus tag: GQR93_15145
inference: COORDINATES: protein motif:HMM:NF019884.2
note: incomplete; too short partial abutting assembly gap; missing C-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: GQR93_RS15145
subclass of: SO_0000673
so part of: GQR93_RS15145
location: complement(<1..276)
location: region:1-276:-1
so has part: feature:1-276:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:1-276:-1:exon

GQR93_RS15150
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15150
old locus tag: GQR93_15150
so part of: sequence
location: 366..788
location: region:366-788:1
so has part: feature:366-788:1:exon
subclass of: SO_0000010

69059697
type: Gene
SIO_000068: ncbigene

position:366:1
position: 366
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:788:1
position: 788
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:366-788:1:exon

GQR93_RS15150
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15150
old locus tag: GQR93_15150
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: MKKLFVSILFVISLFTLFIVSPNNASAKNLKYGFRTATLPTHYLGIWDNHLYGHRYVLMYVKNRHTIYYKDDYETNKSITWNEKNGFLHFIVAKNKSLDKSSKRFYMYNPKENFCTLYTKHGHVYVGADISNLKMHRLKK
SIO_010081: GQR93_RS15150
subclass of: SO_0000673
so part of: GQR93_RS15150
location: 366..788
location: region:366-788:1
so has part: feature:366-788:1:exon

WP_054736405.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:366-788:1:exon

GQR93_RS15155
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15155
old locus tag: GQR93_15155
so part of: sequence
location: 1011..1799
location: region:1011-1799:1
so has part: feature:1011-1799:1:exon
subclass of: SO_0000010

69059698
type: Gene
SIO_000068: ncbigene

position:1011:1
position: 1011
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1799:1
position: 1799
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1011-1799:1:exon

GQR93_RS15155
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15155
old locus tag: GQR93_15155
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: MKKIILTALTLGALAGGVGFLNNQSTLSVQASTTYTWGKTKTYPNPQPFYYAGKSSVYLWSKYHTTKLHNLKNYPKTTWYLSKSVQMKHNGKSAIYYAVTSGNDKVSGYIWRGYLTKGINPIVTNSTTAAESTIMDLFTGATPDSQLQTIANKNVSIDSYNDYQSMLDPSEQNRFVLLSIAGPSNSTVSKELINGDLSYKDYAKEQITNALTNFDQRDTDEYNLIKGKNLTDFNGWKIAVKALPITSAAYGGAFILLIAPAS
SIO_010081: GQR93_RS15155
subclass of: SO_0000673
so part of: GQR93_RS15155
location: 1011..1799
location: region:1011-1799:1
so has part: feature:1011-1799:1:exon

WP_054736407.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1011-1799:1:exon

GQR93_RS15160
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15160
old locus tag: GQR93_15160
so part of: sequence
location: complement(1925..3007)
location: region:1925-3007:-1
so has part: feature:1925-3007:-1:exon
subclass of: SO_0000010

69059699
type: Gene
SIO_000068: ncbigene

position:1925:-1
position: 1925
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3007:-1
position: 3007
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1925-3007:-1:exon

GQR93_RS15160
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15160
old locus tag: GQR93_15160
inference: COORDINATES: protein motif:HMM:NF036612.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helveticin J family class III bacteriocin
translation: MAVFREKTALHYNYQIDLINKNSGIVVVKKIKKEVFKMAQPAYLKYRLLNLPSANVVQKVYVGATYVYALQLINDNTNVVISRIPKTNVTNTYDLDFSSGEQMYLNNFGHGQTWEYFSHNGEDYWWVVTKPNGGSENWGTQLARVQYSPNTSTDTPYNGNTSVTRLALLNHATLDGSSYGTLERVEGALSSDRATLLIAGLDTNGTSHFTLYDNEALNNAMDKVDADHGYVRLDEATSMLSTGVTTPYYSIANFRSALTSSSIQGYDLSNGYAVYFSSGQAASDNHPTQDTPGVTKFTWGHTTGTQVELRNTNWADQNIETEGIQIGSSDLYIGISYHDLPYATKTLENRVYTADKSFWD
SIO_010081: GQR93_RS15160
subclass of: SO_0000673
so part of: GQR93_RS15160
location: complement(1925..3007)
location: region:1925-3007:-1
so has part: feature:1925-3007:-1:exon

WP_159298876.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1925-3007:-1:exon

GQR93_RS15165
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15165
old locus tag: GQR93_15165
so part of: sequence
location: complement(3035..3460)
location: region:3035-3460:-1
so has part: feature:3035-3460:-1:exon
subclass of: SO_0000010

69059700
type: Gene
SIO_000068: ncbigene

position:3035:-1
position: 3035
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3460:-1
position: 3460
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3035-3460:-1:exon

GQR93_RS15165
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15165
old locus tag: GQR93_15165
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: MFPTNQSTLIDDRATERATKDFLMSYQRWQFQLNKAILLLQQPQLDNRQLVQRRYQKALKECHLREQPLQVLGKLGPHEAFAADLLRARFLKRWSTSKTSQFLAQKYDLDYLADRTFFRDQKQALWKFAGVCPQNLLVKKL
SIO_010081: GQR93_RS15165
subclass of: SO_0000673
so part of: GQR93_RS15165
location: complement(3035..3460)
location: region:3035-3460:-1
so has part: feature:3035-3460:-1:exon

WP_159298877.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3035-3460:-1:exon

GQR93_RS15170
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15170
old locus tag: GQR93_15170
so part of: sequence
location: complement(4206..4385)
location: region:4206-4385:-1
so has part: feature:4206-4385:-1:exon
subclass of: SO_0000010

69059701
type: Gene
SIO_000068: ncbigene

position:4206:-1
position: 4206
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4385:-1
position: 4385
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4206-4385:-1:exon

GQR93_RS15170
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15170
old locus tag: GQR93_15170
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003554896.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MSKKIWIVIFRYLLAIGLFAIYYAVFENQNHDLIETVFAVAVGVGIATFPVKKEDKDKK
SIO_010081: GQR93_RS15170
subclass of: SO_0000673
so part of: GQR93_RS15170
location: complement(4206..4385)
location: region:4206-4385:-1
so has part: feature:4206-4385:-1:exon

WP_054736411.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4206-4385:-1:exon

GQR93_RS15175
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15175
old locus tag: GQR93_15175
so part of: sequence
location: complement(4674..5777)
location: region:4674-5777:-1
so has part: feature:4674-5777:-1:exon
subclass of: SO_0000010

69059702
type: Gene
SIO_000068: ncbigene

position:4674:-1
position: 4674
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5777:-1
position: 5777
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4674-5777:-1:exon

GQR93_RS15175
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15175
old locus tag: GQR93_15175
inference: COORDINATES: similar to AA sequence:RefSeq:WP_013721104.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication initiator protein A
translation: MDQTNFKFYQADNVYGALFFQFPKVLMYSQQYRGLSDAAKLAYMVLKDRLEYSLRNHWIDEEGHVYFIFTNQELKDLFDCSNDKLAAVKKDLERAGLLYQKAMHFNPKTGKNEPNRLYLAELDMQSTDVYLRGEYAQKEPQTLATSENPKIGRSRETAQTLATSENPKIGRSRKFVDDTPQTLATSENPKIGHDLDKELKERDTNRYNIDTQKLDFSTAQFSPAELEKQNKDLVNHANDFLTDEDSGLPVFLEPEAVQLLSFWCRTPQQMRRFIGIILNAKYRVEKDHQDIGVLIPLDDEELKSLMTKALRRYFNALRSNEKHIKNVENYLYGTMQNLFGVWWNKKANAKYQAEHPETGQHQAALFN
SIO_010081: GQR93_RS15175
subclass of: SO_0000673
so part of: GQR93_RS15175
location: complement(4674..5777)
location: region:4674-5777:-1
so has part: feature:4674-5777:-1:exon

WP_159298878.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4674-5777:-1:exon

GQR93_RS15180
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15180
old locus tag: GQR93_15180
pseudo: true
so part of: sequence
location: 6379..>6485
location: region:6379-6485:1
so has part: feature:6379-6485:1:exon
subclass of: SO_0000010

69059703
type: Gene
SIO_000068: ncbigene

position:6379:1
position: 6379
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6485:1
position: 6485
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6379-6485:1:exon

GQR93_RS15180
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15180
old locus tag: GQR93_15180
inference: COORDINATES: similar to AA sequence:RefSeq:WP_005918556.1
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: DUF536 domain-containing protein
SIO_010081: GQR93_RS15180
subclass of: SO_0000673
so part of: GQR93_RS15180
location: 6379..>6485
location: region:6379-6485:1
so has part: feature:6379-6485:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:6379-6485:1:exon

GQR93_RS15185
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15185
old locus tag: GQR93_15185
pseudo: true
so part of: sequence
location: <6530..6619
location: region:6530-6619:1
so has part: feature:6530-6619:1:exon
subclass of: SO_0000010

69059704
type: Gene
SIO_000068: ncbigene

position:6530:1
position: 6530
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:6619:1
position: 6619
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6530-6619:1:exon

GQR93_RS15185
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15185
old locus tag: GQR93_15185
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003596745.1
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: IS5/IS1182 family transposase
SIO_010081: GQR93_RS15185
subclass of: SO_0000673
so part of: GQR93_RS15185
location: <6530..6619
location: region:6530-6619:1
so has part: feature:6530-6619:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:6530-6619:1:exon

GQR93_RS15350
type: Gene
subclass of: SO_0000704
RO_0002162: 1588
locus tag: GQR93_RS15350
pseudo: true
so part of: sequence
location: complement(6657..>6896)
location: region:6657-6896:-1
so has part: feature:6657-6896:-1:exon
subclass of: SO_0000010

69059735
type: Gene
SIO_000068: ncbigene

position:6657:-1
position: 6657
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6896:-1
position: 6896
reference: sequence
type: ReverseStrandPosition
type: FuzzyPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6657-6896:-1:exon

GQR93_RS15350
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1588
locus tag: GQR93_RS15350
inference: COORDINATES: similar to AA sequence:RefSeq:WP_008856481.1
note: incomplete; too short partial abutting assembly gap; 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: GQR93_RS15350
subclass of: SO_0000673
so part of: GQR93_RS15350
location: complement(6657..>6896)
location: region:6657-6896:-1
so has part: feature:6657-6896:-1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:6657-6896:-1:exon