Streptococcus alactolyticus strain LGM plasmid unnamed2, complete sequence.
type: Entry
definition: Streptococcus alactolyticus strain LGM plasmid unnamed2, complete sequence.
sequence version: NZ_CP114885.1
sequence date: 2023-04-09
sequence: sequence
division: CON
label: NZ_CP114885.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN32340341
keyword: RefSeq
source: Streptococcus alactolyticus
organism: Streptococcus alactolyticus
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Streptococcaceae; Streptococcus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP114885.1.\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 :: 01-JUN-2022\nAssembly Method :: Unicycler v. 0.4.8\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: Illumina NovaSeq; PacBio Sequel\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 04/09/2023 14:19:39\nAnnotation Pipeline :: NCBI Prokaryotic Genome\n Annotation Pipeline (PGAP)\nAnnotation Method :: Best-placed reference protein\n set; GeneMarkS-2+\nAnnotation Software revision :: 6.5\nFeatures Annotated :: Gene; CDS; rRNA; tRNA; ncRNA\nGenes (total) :: 1,850\nCDSs (total) :: 1,759\nGenes (coding) :: 1,660\nCDSs (with protein) :: 1,660\nGenes (RNA) :: 91\nrRNAs :: 6, 6, 6 (5S, 16S, 23S)\ncomplete rRNAs :: 6, 6, 6 (5S, 16S, 23S)\ntRNAs :: 69\nncRNAs :: 4\nPseudo Genes (total) :: 99\nCDSs (without protein) :: 99\nPseudo Genes (ambiguous residues) :: 0 of 99\nPseudo Genes (frameshifted) :: 36 of 99\nPseudo Genes (incomplete) :: 58 of 99\nPseudo Genes (internal stop) :: 24 of 99\nPseudo Genes (multiple problems) :: 19 of 99\nCRISPR Arrays :: 2\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 4565
topology: circular
so has quality: SO_0000988
location: 1..4565
location: region:1-4565:1
RO_0002162: 29389

NZ_CP114885
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN32340341
type: BioSample
SIO_000068: biosample

1
title: Streptococcus alactolyticus LGM, complete genome
author: Liu, Z.
author: Mu, C.
author: Zhu, W.
journal: Unpublished

2
title: Direct Submission
author: Liu, Z.
author: Mu, C.
author: Zhu, W.
journal: Submitted (21-DEC-2022) National Center for International Research on Animal Gut Nutrition, Nanjing Agricultural University, Xuanwu, Nanjing 210000, China

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

position:4565:1
position: 4565
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-4565:1:source
so part of: sequence
organism: Streptococcus alactolyticus
mol type: genomic DNA
strain: LGM
isolation source: colonic digesta
host: pig
plasmid: unnamed2
country: China:Nanjing
collection date: 2022-06-01

29389
type: Taxonomy
SIO_000068: taxonomy

O6R09_RS09230
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
gene: mobV
locus tag: O6R09_RS09230
old locus tag: O6R09_09230
so part of: sequence
location: 1..1497
location: region:1-1497:1
so has part: feature:1-1497:1:exon
subclass of: SO_0000010

79927771
type: Gene
SIO_000068: ncbigene

position:1497:1
position: 1497
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-1497:1:exon

O6R09_RS09230
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
gene: mobV
locus tag: O6R09_RS09230
old locus tag: O6R09_09230
inference: COORDINATES: similar to AA sequence:RefSeq:WP_012218462.1
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: MSYIVARMEKMKVGNLGGAYRHNERIFKNHSNKDIDPNRSHLNYELTDRDRSVSYEKQIKNYVNETKISKRAIRKDAVLCDEWVITSDKTFFEKLDQEKTRDFFETAKNYFAENYGEENIAYASVHLDESTPHMHMGVVPFENGKLSSKAMFDREELKKIQDELPKYMNEHGFDLQRGELNSEAKHKTVAEFKQDMAVKELDEKLVSEYGAPVYINETTGEFVTEGEYQENYKDFKETFGEYNVTEDDFKDFLDSDDIPLRKVTVQEKMDWVKQHYQQALNKLESSQKLSEARISNLDQKIEEKTKELSKIDLEASQKLSELSELEEQVNILEPQKNSLEAKIEGLRNEIEQLGSISDSELDSIRPKKGILGSKVELSPKQWSDFKGSYYKARNEAREMKQLAKMYAQKNQALANGDRFQNSLNKAKTEVKDSQIISLQNALKDKDKTISVLEQKNKKLLEAAKQYMPQKLFQSLLEELQMIKPIVKVVRTVKSLFRD
SIO_010081: O6R09_RS09230
subclass of: SO_0000673
so part of: O6R09_RS09230
location: 1..1497
location: region:1-1497:1
so has part: feature:1-1497:1:exon

WP_269725884.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-1497:1:exon

O6R09_RS09235
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09235
old locus tag: O6R09_09235
so part of: sequence
location: 2552..3517
location: region:2552-3517:1
so has part: feature:2552-3517:1:exon
subclass of: SO_0000010

79927772
type: Gene
SIO_000068: ncbigene

position:2552:1
position: 2552
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3517:1
position: 3517
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2552-3517:1:exon

O6R09_RS09235
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09235
old locus tag: O6R09_09235
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011669014.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: protein rep
translation: MTGKEKQVFKDYSKQGKDRKWRERKLKNIELAGRLERLGYRSFERVYQCAEVLKFIEQQDGTKRLYQSYFCKNKLCPICNWRRSMKYAYQAELVVNEAMKRYPKGRFLFLTLTIKNVSGKELNKTLSKMTQGFNRLFKYKKVDKNVLGYLRATEVTYSTEHEDYHPHLHVLLFVKSSYFTGNNTNYISQEEWTKLWAKAMKLDYTPVVDIRTVKAHKRKNLKSAIIETAKYPVKPFDVDTEDVSLFSEFKKDKITDDLSQGLHRKRQIGFGKLFKEIKAELALDDVEEGNLVQTGAEENSESTGREIVAFWNWGRSNYFVR
SIO_010081: O6R09_RS09235
subclass of: SO_0000673
so part of: O6R09_RS09235
location: 2552..3517
location: region:2552-3517:1
so has part: feature:2552-3517:1:exon

WP_269725880.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2552-3517:1:exon

O6R09_RS09240
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09240
old locus tag: O6R09_09240
so part of: sequence
location: 3522..3659
location: region:3522-3659:1
so has part: feature:3522-3659:1:exon
subclass of: SO_0000010

79927773
type: Gene
SIO_000068: ncbigene

position:3522:1
position: 3522
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3659:1
position: 3659
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3522-3659:1:exon

O6R09_RS09240
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09240
old locus tag: O6R09_09240
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: MTEKVKEIKKTPVEIAEEKRLERNRKAREYYRKRKIERILRRELP
SIO_010081: O6R09_RS09240
subclass of: SO_0000673
so part of: O6R09_RS09240
location: 3522..3659
location: region:3522-3659:1
so has part: feature:3522-3659:1:exon

WP_269725881.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3522-3659:1:exon

O6R09_RS09245
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09245
old locus tag: O6R09_09245
so part of: sequence
location: 3656..3892
location: region:3656-3892:1
so has part: feature:3656-3892:1:exon
subclass of: SO_0000010

79927774
type: Gene
SIO_000068: ncbigene

position:3656:1
position: 3656
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3892:1
position: 3892
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3656-3892:1:exon

O6R09_RS09245
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09245
old locus tag: O6R09_09245
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: MSKTVSELAQELGLSKQYLNRILSQNNLGRKKGNKKVVSDIDEKALISILESNIGNKKSETKTETKKVVSDMSVNSWK
SIO_010081: O6R09_RS09245
subclass of: SO_0000673
so part of: O6R09_RS09245
location: 3656..3892
location: region:3656-3892:1
so has part: feature:3656-3892:1:exon

WP_269725882.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3656-3892:1:exon

O6R09_RS09250
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09250
old locus tag: O6R09_09250
so part of: sequence
location: 3883..4197
location: region:3883-4197:1
so has part: feature:3883-4197:1:exon
subclass of: SO_0000010

79927775
type: Gene
SIO_000068: ncbigene

position:3883:1
position: 3883
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:4197:1
position: 4197
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3883-4197:1:exon

O6R09_RS09250
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09250
old locus tag: O6R09_09250
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: MEIKGKEVERLHQLLDQSQQLLLNEQKKNQLLLESKAEPADWEEEKTRLKKEISSYQKSLSEANRVADNNYAYAVEREQWFWIAGITAVVFLVIILVLIWIHFF
SIO_010081: O6R09_RS09250
subclass of: SO_0000673
so part of: O6R09_RS09250
location: 3883..4197
location: region:3883-4197:1
so has part: feature:3883-4197:1:exon

WP_269725883.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3883-4197:1:exon