Leuconostoc lactis strain CBA3625 plasmid unnamed, complete sequence.
type: Entry
definition: Leuconostoc lactis strain CBA3625 plasmid unnamed, complete sequence.
sequence version: NZ_CP042388.1
sequence date: 2023-03-25
sequence: sequence
division: CON
label: NZ_CP042388.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN11843673
keyword: RefSeq
source: Leuconostoc lactis
organism: Leuconostoc lactis
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Lactobacillaceae; Leuconostoc.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP042388.1.\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 Method :: HGAP v. v 3.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 369.95x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/25/2023 01:17:25\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) :: 1,820\nCDSs (total) :: 1,738\nGenes (coding) :: 1,721\nCDSs (with protein) :: 1,721\nGenes (RNA) :: 82\nrRNAs :: 4, 4, 4 (5S, 16S, 23S)\ncomplete rRNAs :: 4, 4, 4 (5S, 16S, 23S)\ntRNAs :: 67\nncRNAs :: 3\nPseudo Genes (total) :: 17\nCDSs (without protein) :: 17\nPseudo Genes (ambiguous residues) :: 0 of 17\nPseudo Genes (frameshifted) :: 5 of 17\nPseudo Genes (incomplete) :: 7 of 17\nPseudo Genes (internal stop) :: 7 of 17\nPseudo Genes (multiple problems) :: 2 of 17\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 10153
topology: circular
so has quality: SO_0000988
location: 1..10153
location: region:1-10153:1
RO_0002162: 1246

NZ_CP042388
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN11843673
type: BioSample
SIO_000068: biosample

1
title: Genome analyses of bacteria isolated from kimchi
author: Lee, S.
author: Ahn, S.
author: Roh, S.
journal: Unpublished

2
title: Direct Submission
author: Lee, S.
author: Ahn, S.
author: Roh, S.
journal: Submitted (14-JUN-2019) 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:10153:1
position: 10153
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-10153:1:source
so part of: sequence
organism: Leuconostoc lactis
mol type: genomic DNA
strain: CBA3625
isolation source: kimchi
plasmid: unnamed
country: South Korea

1246
type: Taxonomy
SIO_000068: taxonomy

FGL83_RS09040
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09040
old locus tag: FGL83_09040
so part of: sequence
location: complement(join(10018..10153,1..203))
location: region:1-10153:-1
so has part: feature:1-203:-1:exon
so has part: feature:10018-10153:-1:exon
subclass of: SO_0000010

66532345
type: Gene
SIO_000068: ncbigene

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

position:10153:-1
position: 10153
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-203:-1:exon

position:203:-1
position: 203
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 2
SIO_000628: feature:10018-10153:-1:exon

position:10018:-1
position: 10018
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

FGL83_RS09040
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09040
old locus tag: FGL83_09040
inference: COORDINATES: similar to AA sequence:RefSeq:WP_003646108.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helix-turn-helix transcriptional regulator
translation: MILGQRIKEEREKRQWTQDYLAETLNVSRQAISKWEVGSTYPDIDRLVQISNLFDITLDSLIKGDDSLKKSIVITKNAKAQTNVWEFMRSTGWMMVIAIIYLVTKMIIAVFS
SIO_010081: FGL83_RS09040
subclass of: SO_0000673
so part of: FGL83_RS09040
location: complement(join(10018..10153,1..203))
location: region:1-10153:-1
so has part: feature:1-203:-1:exon
so has part: feature:10018-10153:-1:exon

WP_003646108.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-203:-1:exon

urn:…
SIO_000300: 2
SIO_000628: feature:10018-10153:-1:exon

FGL83_RS09045
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09045
old locus tag: FGL83_09045
so part of: sequence
location: complement(346..1551)
location: region:346-1551:-1
so has part: feature:346-1551:-1:exon
subclass of: SO_0000010

66532346
type: Gene
SIO_000068: ncbigene

position:346:-1
position: 346
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1551:-1
position: 1551
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:346-1551:-1:exon

FGL83_RS09045
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09045
old locus tag: FGL83_09045
EC number: 3.1.21.-
inference: COORDINATES: similar to AA sequence:RefSeq:WP_016386996.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0006304 - DNA modification [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: restriction endonuclease subunit S
translation: MAKIDDSVKKKVPELRFAGFADDWEQRKLGELASNFEYGLNASAKEFDGIHKYIRITDIDDSSRKFNSDSITSPDIDLSSADNYKLKNGDLLFARTGASVGKSYLYTESDGLVYYAGFLIRARLKSEFDSNFVFQNTLTSDYKNFIKVTSQRSGQPGVNAQEYASFNIKTPCYDEQQKIGLFFKQLDDLITLHQRKLDLLKEQKKGYLQKMFPKNGEKVPELRFAGFADDWEERKLGEIFNYEQPTKYIVKSTEYDDTFNTPVLTAGKSFLLGYTDEITGIKNATVENPVVIFDDFTTSSHYVDFPFKIKSSAMKLLSLNDNSDNFYFMFNTLKNIKYVPQSHERHWISKFSEFEIYKPSQEEQQKIGSFFKQLDDTIALHQRKLDLLKEQKKGFLQKMFV
SIO_010081: FGL83_RS09045
subclass of: SO_0000673
so part of: FGL83_RS09045
location: complement(346..1551)
location: region:346-1551:-1
so has part: feature:346-1551:-1:exon

WP_147001510.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:346-1551:-1:exon

FGL83_RS09050
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09050
old locus tag: FGL83_09050
so part of: sequence
location: complement(1539..2114)
location: region:1539-2114:-1
so has part: feature:1539-2114:-1:exon
subclass of: SO_0000010

66532347
type: Gene
SIO_000068: ncbigene

position:1539:-1
position: 1539
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2114:-1
position: 2114
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1539-2114:-1:exon

FGL83_RS09050
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09050
old locus tag: FGL83_09050
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004256084.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: HTH domain-containing protein
translation: MSENLKTIRELADELGVSKQAIWQKIKRDTSIDLRQFTSTKGNTVYVDVDGQKAIKSMFSKDSSTRDRQQKDDIDDNKKDDVDEQDEVKFLRNLVSEIQSEKKELHKLLDQQQRLALQDKKLLEEYKAENDRLKVLKMPSQETEFKHLDNQYKDEVNALKEKLENLHEQIKDQKRIEEQEKPRKWWGLWRK
SIO_010081: FGL83_RS09050
subclass of: SO_0000673
so part of: FGL83_RS09050
location: complement(1539..2114)
location: region:1539-2114:-1
so has part: feature:1539-2114:-1:exon

WP_147001511.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1539-2114:-1:exon

FGL83_RS09055
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09055
old locus tag: FGL83_09055
so part of: sequence
location: complement(2107..3261)
location: region:2107-3261:-1
so has part: feature:2107-3261:-1:exon
subclass of: SO_0000010

66532348
type: Gene
SIO_000068: ncbigene

position:2107:-1
position: 2107
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3261:-1
position: 3261
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2107-3261:-1:exon

FGL83_RS09055
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09055
old locus tag: FGL83_09055
inference: COORDINATES: similar to AA sequence:RefSeq:WP_014335299.1
GO function: GO:0003887 - DNA-directed DNA polymerase activity [Evidence IEA]
GO process: GO:0006270 - DNA replication initiation [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: RepB family plasmid replication initiator protein
translation: MSIIPESKTRQVHTLNELSKRKVVEHNSLITSIAKMDKTPLKMFELAVSLIDTENPPEDQTVYLSKRELFAFFKVDDSNKHSRFKEAVEKMQKQAFFQIKKEQDKGFKFISIVPIPYVEWTDYNDEVKIEFHREIMPYLINLKNNFTQHALSDIAELNSKYAIILYRWLSMNYNQYEHYSVKGGRREEQVESYRNPEISMRDLRQMTDTIDEYKRFDHFEKRVLNEPLSEITKHTTFNVTYEKLKKGRSIDSIVFHITKKQVADDISYKLDDPVYIEGKIRQEETEDMLTVKAIKSPYTKLLMEQFLLSYIDLTDTTILSGLQKNVYPLYDELKELRGLKGVKEHLAYIRDKQDDYSKKNIAKYLKKSIEQYLPIVKRQDIDHE
SIO_010081: FGL83_RS09055
subclass of: SO_0000673
so part of: FGL83_RS09055
location: complement(2107..3261)
location: region:2107-3261:-1
so has part: feature:2107-3261:-1:exon

WP_147001512.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2107-3261:-1:exon

FGL83_RS09060
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
gene: mobV
locus tag: FGL83_RS09060
old locus tag: FGL83_09060
so part of: sequence
location: complement(3765..5108)
location: region:3765-5108:-1
so has part: feature:3765-5108:-1:exon
subclass of: SO_0000010

66532349
type: Gene
SIO_000068: ncbigene

position:3765:-1
position: 3765
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:5108:-1
position: 5108
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3765-5108:-1:exon

FGL83_RS09060
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
gene: mobV
locus tag: FGL83_RS09060
old locus tag: FGL83_09060
inference: COORDINATES: similar to AA sequence:RefSeq:WP_004906025.1
GO function: GO:0003677 - DNA binding [Evidence IEA]
GO process: GO:0006310 - DNA recombination [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: MobV family relaxase
translation: MPRRACPKYYFGITGYTRFLTVLYWSWKTFFEEAFLMAHLKKNTRGAVPGLAVHFERKTDHHTNKEINVSKTYLNQDLMSDGSDMLSRFNARLNDVYCMKRDDVKALATWIVTLPEELAEAPYEQQSAFFEATTNFLNERYGQENAVAAVVHYDETTPHLHYAFVPVVFDDKKSRYKVSAKEVLTRHDLQTFHEDLDQHLKKVLPFYEQGILNNKTLPFENVAEIKKYNDQFNALKTELADIEDNIRAKQAVLKITDQSLMEVDLAEKQIDAFKQALSKNLFGKTVLKPDDLDRFKNVLATMKKATLQSQHETEELKQTLGQVKAQLADIQADYQNLKETHQALQQRQREQQQLDYAMRDMLKNDYGVDKIAHTDVEARYVLYKLDHEELTQNKKEAQSWLKTLTTARADPDTKIAPTRLDRGIEQVKALINRIIELTRDIFKGPSL
SIO_010081: FGL83_RS09060
subclass of: SO_0000673
so part of: FGL83_RS09060
location: complement(3765..5108)
location: region:3765-5108:-1
so has part: feature:3765-5108:-1:exon

WP_243129784.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3765-5108:-1:exon

FGL83_RS09065
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09065
old locus tag: FGL83_09065
so part of: sequence
location: 5631..6467
location: region:5631-6467:1
so has part: feature:5631-6467:1:exon
subclass of: SO_0000010

66532350
type: Gene
SIO_000068: ncbigene

position:5631:1
position: 5631
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:6467:1
position: 6467
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:5631-6467:1:exon

FGL83_RS09065
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09065
old locus tag: FGL83_09065
inference: COORDINATES: similar to AA sequence:RefSeq:WP_015081775.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: AraC family transcriptional regulator
translation: MMHQFNKTIDYLENTLISEVDFKKFQNISGYSYPLFSRIFSILSEITLAEYLRNRKLTLAVDDLLNTDQKIIDIALKYNYDSADAFSFAFKKFHGNSPSEVRKGKNYKLFPKMKVALKVIGGSQMNIKIETKPSFKVAGILKENIESNQCPSIWDQLYNNYSFDQLGSFGTGQSLGVCYENEENDKINYMAGYDVLDDAKARNLGLDILEVKETEYAVVPVKGSVPDSIHQAWKFLLEEFFPENGYKHSGLPDFEVYTENDILDPNYEMELWVPIVKQ
SIO_010081: FGL83_RS09065
subclass of: SO_0000673
so part of: FGL83_RS09065
location: 5631..6467
location: region:5631-6467:1
so has part: feature:5631-6467:1:exon

WP_147001513.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:5631-6467:1:exon

FGL83_RS09070
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09070
old locus tag: FGL83_09070
so part of: sequence
location: 6647..7144
location: region:6647-7144:1
so has part: feature:6647-7144:1:exon
subclass of: SO_0000010

66532351
type: Gene
SIO_000068: ncbigene

position:6647:1
position: 6647
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:7144:1
position: 7144
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:6647-7144:1:exon

FGL83_RS09070
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09070
old locus tag: FGL83_09070
EC number: 2.3.1.-
inference: COORDINATES: similar to AA sequence:RefSeq:WP_016631768.1
GO function: GO:0008080 - N-acetyltransferase activity [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: GNAT family N-acetyltransferase
translation: MNNQITLTYLDYDDLDALQVVSVVTFYESFIDGADPLDMQVYLQTQLTTEILAVELAQPTSKFIGIKDHQILIGYMKVNDEKDAIEIQRIYLLKDYQNKGLGQRLLDEANRYAKTKQKRYLRLTVYEKNHAGIRFYERHGFKKIGIKHFPLGKQDRICPILEKEI
SIO_010081: FGL83_RS09070
subclass of: SO_0000673
so part of: FGL83_RS09070
location: 6647..7144
location: region:6647-7144:1
so has part: feature:6647-7144:1:exon

WP_147001514.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:6647-7144:1:exon

FGL83_RS09075
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09075
old locus tag: FGL83_09075
pseudo: true
so part of: sequence
location: <7603..7944
location: region:7603-7944:1
so has part: feature:7603-7944:1:exon
subclass of: SO_0000010

66532352
type: Gene
SIO_000068: ncbigene

position:7603:1
position: 7603
reference: sequence
type: ForwardStrandPosition
type: FuzzyPosition

position:7944:1
position: 7944
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:7603-7944:1:exon

FGL83_RS09075
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09075
old locus tag: FGL83_09075
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010372437.1
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: Crp/Fnr family transcriptional regulator
SIO_010081: FGL83_RS09075
subclass of: SO_0000673
so part of: FGL83_RS09075
location: <7603..7944
location: region:7603-7944:1
so has part: feature:7603-7944:1:exon

urn:…
SIO_000300: 1
SIO_000628: feature:7603-7944:1:exon

FGL83_RS09080
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09080
old locus tag: FGL83_09080
so part of: sequence
location: complement(8116..8706)
location: region:8116-8706:-1
so has part: feature:8116-8706:-1:exon
subclass of: SO_0000010

66532353
type: Gene
SIO_000068: ncbigene

position:8116:-1
position: 8116
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:8706:-1
position: 8706
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:8116-8706:-1:exon

FGL83_RS09080
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09080
old locus tag: FGL83_09080
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017369153.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: site-specific integrase
translation: MVQQIVLPIKDSNVLKMVQDTLLDSFRAGRRNYTVFQVGKATLLRVSDVMTLKKSDVYNPDGSVKNTAFIHDKKTGKANTLYLKPVQQDLLQYHDWLVQENINSEWLFPSTAHHDRHITEKQFYKVMARVGDLLGINYLGTHTMRKTGAYRVYTQSNYNIGLVMHLLNHSSEAMTLTYLGLDQASRETMLDQIDFG
SIO_010081: FGL83_RS09080
subclass of: SO_0000673
so part of: FGL83_RS09080
location: complement(8116..8706)
location: region:8116-8706:-1
so has part: feature:8116-8706:-1:exon

WP_013102111.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:8116-8706:-1:exon

FGL83_RS09085
type: Gene
subclass of: SO_0000704
RO_0002162: 1246
locus tag: FGL83_RS09085
old locus tag: FGL83_09085
so part of: sequence
location: 9001..9603
location: region:9001-9603:1
so has part: feature:9001-9603:1:exon
subclass of: SO_0000010

66532354
type: Gene
SIO_000068: ncbigene

position:9001:1
position: 9001
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:9603:1
position: 9603
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:9001-9603:1:exon

FGL83_RS09085
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1246
locus tag: FGL83_RS09085
old locus tag: FGL83_09085
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010077973.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: helix-turn-helix transcriptional regulator
translation: MKFGDRLKNARTEMNLTQEQVANDFFITRQTISSWENEKTYPDITSLIKLSDYYHISLDTLLKEDSGMKEYLEKKSVEKSIIPILIMLIIIDLLFITLLVLKIINVIQFSNNAFLILNTFGILNAIALLQLSFFKIKVGSKNKKLIANKKLSLSIGGILIVAGMLFLLFTNQTLISGILGGMGFAILVFYLFSKITSKRS
SIO_010081: FGL83_RS09085
subclass of: SO_0000673
so part of: FGL83_RS09085
location: 9001..9603
location: region:9001-9603:1
so has part: feature:9001-9603:1:exon

WP_147001515.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:9001-9603:1:exon