Furfurilactobacillus rossiae strain L1 plasmid LROSL1_p6, complete sequence.
type: Entry
definition: Furfurilactobacillus rossiae strain L1 plasmid LROSL1_p6, complete sequence.
sequence version: NZ_CP040585.1
sequence date: 2022-10-24
sequence: sequence
division: CON
label: NZ_CP040585.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN11607496
keyword: RefSeq
source: Furfurilactobacillus rossiae
organism: Furfurilactobacillus rossiae
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Furfurilactobacillus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP040585.1.\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 :: 11-APR-2016\nAssembly Method :: HGAP protocol RS Assembly v. 2.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.97x\nSequencing Technology :: PacBio\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 10/24/2022 02:06:00\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) :: 2,638\nCDSs (total) :: 2,562\nGenes (coding) :: 2,545\nCDSs (with protein) :: 2,545\nGenes (RNA) :: 76\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 61\nncRNAs :: 3\nPseudo Genes (total) :: 17\nCDSs (without protein) :: 17\nPseudo Genes (ambiguous residues) :: 0 of 17\nPseudo Genes (frameshifted) :: 4 of 17\nPseudo Genes (incomplete) :: 11 of 17\nPseudo Genes (internal stop) :: 2 of 17\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 8266
topology: circular
so has quality: SO_0000988
location: 1..8266
location: region:1-8266:1
RO_0002162: 231049

NZ_CP040585
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN11607496
type: BioSample
SIO_000068: biosample

1
title: Lifestyle of Lactobacillus rossiae strains based on genomic, proteomic and phenome characterization
author: Bottacini, F.
author: Calabrese, F.M.
author: Siragusa, S.
author: van Sinderen, D.
author: Gobbetti, M.
author: De Angelis, M.
journal: Unpublished

2
title: Direct Submission
author: Bottacini, F.
author: Calabrese, F.M.
author: Siragusa, S.
author: van Sinderen, D.
author: Gobbetti, M.
author: De Angelis, M.
journal: Submitted (23-MAY-2019) Soil, Plant and Food Sciences, University of Bari, Via Amendola 165/a, Bari, BA 70126, Italy

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

position:8266:1
position: 8266
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-8266:1:source
so part of: sequence
organism: Furfurilactobacillus rossiae
mol type: genomic DNA
strain: L1
isolation source: swine's gut
plasmid: LROSL1_p6
country: Italy
collection date: 2016-04-11

231049
type: Taxonomy
SIO_000068: taxonomy

LROSL1_RS00120
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00120
old locus tag: LROSL1_p60001
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

LROSL1_RS00120
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00120
old locus tag: LROSL1_p60001
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: MSNELVKYDPELNTIPLRRFTPVEMNLFFSVVSRMRDKGDDTVRFTFDQLKELSAYKPTANNRFIDDIQSTYQKILGLRFGSRSKDGLDREMFVMFTRFEIKGSADVPYVDIQIYPKALKLLNNLESWVRYALTEFRDLKSSYAKTTFRILKQFRTTGYAYFSKNDFFELLDIPQSYWSKPANVESRVIRPIKEELTPLFRGLTIRKKYGKGRGKPVIGYTFTWKPERKDANDFSQGKFQDERQKLFNIQNNGELTEQEKWRATDKVKGLPLGSTEKQILAERQIEHDKTIRDQTRQEMLAELRKGFGNHA
SIO_010081: LROSL1_RS00120
subclass of: SO_0000673
so part of: LROSL1_RS00120
location: 1..936
location: region:1-936:1
so has part: feature:1-936:1:exon

WP_057802899.1
type: Protein
SIO_000068: ncbiprotein

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

LROSL1_RS00125
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00125
old locus tag: LROSL1_p60002
so part of: sequence
location: 929..1405
location: region:929-1405:1
so has part: feature:929-1405:1:exon
subclass of: SO_0000010

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

position:1405:1
position: 1405
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:929-1405:1:exon

LROSL1_RS00125
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00125
old locus tag: LROSL1_p60002
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014335298.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: DUF536 domain-containing protein
translation: MPKTIRELADEFGVSKQAVRKKLDANFRVKYVQTVPRSGVQTLVVSDSGYLLLKQHFDGGNSQKLGEKKFTSNTGNMSINTIELLNQQLAIKDTQIKEKDEQLKSMQKLLDQSQQLQLMAERKIEKFKAITSKQSKHDNPNLNNANDLKQKNAWWHFW
SIO_010081: LROSL1_RS00125
subclass of: SO_0000673
so part of: LROSL1_RS00125
location: 929..1405
location: region:929-1405:1
so has part: feature:929-1405:1:exon

WP_137631714.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:929-1405:1:exon

LROSL1_RS00130
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00130
old locus tag: LROSL1_p60003
so part of: sequence
location: 1666..2013
location: region:1666-2013:1
so has part: feature:1666-2013:1:exon
subclass of: SO_0000010

position:1666:1
position: 1666
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2013:1
position: 2013
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1666-2013:1:exon

LROSL1_RS00130
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00130
old locus tag: LROSL1_p60003
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: MNIKKIVKLAILPALLLALSQTGLPSAMADALTTAAVGSTAAVAQTAKNADVATTAATAEKAAGGGALGEGWGVIPGIPSKPGVPGIPSVPGIPGKPGIPGKRVSGSYRGHCRNG
SIO_010081: LROSL1_RS00130
subclass of: SO_0000673
so part of: LROSL1_RS00130
location: 1666..2013
location: region:1666-2013:1
so has part: feature:1666-2013:1:exon

WP_225440505.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1666-2013:1:exon

LROSL1_RS00135
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00135
old locus tag: LROSL1_p60004
so part of: sequence
location: 2174..3289
location: region:2174-3289:1
so has part: feature:2174-3289:1:exon
subclass of: SO_0000010

position:2174:1
position: 2174
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3289:1
position: 3289
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2174-3289:1:exon

LROSL1_RS00135
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00135
old locus tag: LROSL1_p60004
EC number: 2.4.-.-
inference: COORDINATES: protein motif:HMM:NF025025.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: glycosyltransferase
translation: MLLAAGQNGKSIELEPLLAKGYQLILLVPAMNEEGIIEQTMRLFLMETANLPNVKMVIIDDASSDDTALLVKNFSKQAGGRIQLLQRQLPQAQTGKGNALNWAYQQVILDSRDRDHLICGVLDADAYMAEESYQKVIQYFAQDEKLDLLQTRVGMLETRNWLQIMQDIEFTVINDLIQNTRNRLGNAAASGNGQFIRVSSVTAQRPWGNALLEDFEFSTRFLMEGKKTLYAGDTVVYQEAIDKLRPFIKQRARWTQGGLDCLFGYWSRVLRSPFINLPAKAEMTFYMLIPFVTLFTGVASLAVFVFTLSNFDDYWQLLAVIVGINLPFNAYIIVQYQRASHTRQYGSLVWTVITFAIYNYLLYPAIVIAFF
SIO_010081: LROSL1_RS00135
subclass of: SO_0000673
so part of: LROSL1_RS00135
location: 2174..3289
location: region:2174-3289:1
so has part: feature:2174-3289:1:exon

WP_225440506.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2174-3289:1:exon

LROSL1_RS00140
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00140
old locus tag: LROSL1_p60005
so part of: sequence
location: 3362..4714
location: region:3362-4714:1
so has part: feature:3362-4714:1:exon
subclass of: SO_0000010

position:3362:1
position: 3362
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4714:1
position: 4714
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3362-4714:1:exon

LROSL1_RS00140
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00140
old locus tag: LROSL1_p60005
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: MKKWKSTLVVASATLGMFFAFGSSVSVKADDVNDAANTTAVQVQNTQTATEQTTSTSSDTAATASQATSSVATSAASSASSTQSAASQASSSAATTSQASSSATSSAASSTASTTSTTSTQTTTTQSSAQTSQTQAQPSQASQTQSSQTQTSKPAAQTTTASEATTASQAAEATTADTASKAETAATSEKLASDLAETAATAGTAGTAGTAGTAGTVGTAGTVGTAGTAGTAGTAGTAGTAGTAGTVGTAGTAGTAGTAGTAGTVGTAGTVGTAGTAGTAGTAGTAGTVGTAGTAGTAGTAGTAGTAGTAGTVGTAGTAGTAGTAGTAGTVGTAGTVGTAGTAGTAGTAGTAGTAETAPTAPTAPTAPTAPTAPTAPTAPTAPTAPTAPTAPTAPTAPTAPSKPTTPTCQRYVVVVTIRVHYYSYRSYSCRPFFAANRCFRSCAWMPFFF
SIO_010081: LROSL1_RS00140
subclass of: SO_0000673
so part of: LROSL1_RS00140
location: 3362..4714
location: region:3362-4714:1
so has part: feature:3362-4714:1:exon

WP_178913285.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3362-4714:1:exon

LROSL1_RS00145
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00145
old locus tag: LROSL1_p60006
so part of: sequence
location: 4873..5286
location: region:4873-5286:1
so has part: feature:4873-5286:1:exon
subclass of: SO_0000010

position:4873:1
position: 4873
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5286:1
position: 5286
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4873-5286:1:exon

LROSL1_RS00145
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00145
old locus tag: LROSL1_p60006
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: MLLYSTMLDVNDTLTKEKFIQLVIKWNQESQYEENVISGLVWDGQMNVRYGDDRHWLEIEEYRNGNTVAIRYQKVEENGRIWNTDYVMNFAAGKMHIQLDRSFTGDANDLDQEFSTLHTKIHPRESKHFVYRHLRCR
SIO_010081: LROSL1_RS00145
subclass of: SO_0000673
so part of: LROSL1_RS00145
location: 4873..5286
location: region:4873-5286:1
so has part: feature:4873-5286:1:exon

WP_178913286.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4873-5286:1:exon

LROSL1_RS00150
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00150
so part of: sequence
location: 5195..5542
location: region:5195-5542:1
so has part: feature:5195-5542:1:exon
subclass of: SO_0000010

position:5195:1
position: 5195
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:5542:1
position: 5542
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5195-5542:1:exon

LROSL1_RS00150
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00150
inference: COORDINATES: protein motif:HMM:NF013828.2
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: ATP-binding protein
translation: MTWTRNFPPCTLRFTQENQNILFIGTSGVGKTHLATAIGIEGCKQGISTQFIRCSDLINKLQTAQVQGRSEGVLRRYARFKILIIDEIGYLPIESVGAKLFFQLIERRYERKLVG
SIO_010081: LROSL1_RS00150
subclass of: SO_0000673
so part of: LROSL1_RS00150
location: 5195..5542
location: region:5195-5542:1
so has part: feature:5195-5542:1:exon

WP_225440507.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5195-5542:1:exon

LROSL1_RS00155
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00155
old locus tag: LROSL1_p60007
so part of: sequence
location: complement(5719..6063)
location: region:5719-6063:-1
so has part: feature:5719-6063:-1:exon
subclass of: SO_0000010

position:5719:-1
position: 5719
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6063:-1
position: 6063
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5719-6063:-1:exon

LROSL1_RS00155
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00155
old locus tag: LROSL1_p60007
EC number: 3.1.-.-
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011241744.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: type II toxin-antitoxin system PemK/MazF family toxin
translation: MVSQGDIFYVNFNPSRGHEQMNKRPAIALSNDLVCQTSNMTIVAPISSTKRNFPMYHRLTSSQTVYGKVLLDQTIALDLRARHVTDETIVDHVSREELEEIITLYKLLFSIDDK
SIO_010081: LROSL1_RS00155
subclass of: SO_0000673
so part of: LROSL1_RS00155
location: complement(5719..6063)
location: region:5719-6063:-1
so has part: feature:5719-6063:-1:exon

WP_001748110.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5719-6063:-1:exon

LROSL1_RS00160
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00160
old locus tag: LROSL1_p60008
so part of: sequence
location: complement(6057..6320)
location: region:6057-6320:-1
so has part: feature:6057-6320:-1:exon
subclass of: SO_0000010

position:6057:-1
position: 6057
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:6320:-1
position: 6320
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6057-6320:-1:exon

LROSL1_RS00160
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00160
old locus tag: LROSL1_p60008
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003715897.1
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: AbrB/MazE/SpoVT family DNA-binding domain-containing protein
translation: MELIKDQTRLAKWGNSKAARIPSQIIKQLKLDDNQDMTITIENGSIVLTPIKKNPTNIHELFKDWKDDGKRDHELDWGKSEGNELQW
SIO_010081: LROSL1_RS00160
subclass of: SO_0000673
so part of: LROSL1_RS00160
location: complement(6057..6320)
location: region:6057-6320:-1
so has part: feature:6057-6320:-1:exon

WP_178913288.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6057-6320:-1:exon

LROSL1_RS00165
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00165
old locus tag: LROSL1_p60009
so part of: sequence
location: 6406..6993
location: region:6406-6993:1
so has part: feature:6406-6993:1:exon
subclass of: SO_0000010

position:6406:1
position: 6406
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6993:1
position: 6993
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6406-6993:1:exon

LROSL1_RS00165
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00165
old locus tag: LROSL1_p60009
inference: COORDINATES: similar to AA sequence:RefSeq:WP_005917937.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MQQVVLPIKDSNVLKEVQDTLLNNFKAGRRNYTIFQVGKATLLRVSDVMGLKQTDIFNLDGSIKQNAFIHDRKTGKPNTLYLKPVQTELLLYRQWLLDHKLASEWLFPSIQHPERHITEKQFYKIMSKVGDLLGINYLGTHTMRKTGAYRAYTQSNYNIGLVMNLLNHSSEAMTLAYLGLDQASTESMLDQIDFG
SIO_010081: LROSL1_RS00165
subclass of: SO_0000673
so part of: LROSL1_RS00165
location: 6406..6993
location: region:6406-6993:1
so has part: feature:6406-6993:1:exon

WP_178913289.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6406-6993:1:exon

LROSL1_RS00170
type: Gene
subclass of: SO_0000704
RO_0002162: 231049
locus tag: LROSL1_RS00170
old locus tag: LROSL1_p60010
so part of: sequence
location: 7347..7559
location: region:7347-7559:1
so has part: feature:7347-7559:1:exon
subclass of: SO_0000010

position:7347:1
position: 7347
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7559:1
position: 7559
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7347-7559:1:exon

LROSL1_RS00170
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 231049
locus tag: LROSL1_RS00170
old locus tag: LROSL1_p60010
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: MLGVIKMDEKKVLKPIDEMLADPWQVDIQELFEASVNEPDEIKKNLYDSLYTYILQKRQEDIINRPGFVI
SIO_010081: LROSL1_RS00170
subclass of: SO_0000673
so part of: LROSL1_RS00170
location: 7347..7559
location: region:7347-7559:1
so has part: feature:7347-7559:1:exon

WP_010015136.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:7347-7559:1:exon