Streptococcus alactolyticus strain LGM plasmid unnamed1, complete sequence.
type: Entry
definition: Streptococcus alactolyticus strain LGM plasmid unnamed1, complete sequence.
sequence version: NZ_CP114884.1
sequence date: 2023-04-09
sequence: sequence
division: CON
label: NZ_CP114884.1
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\nCP114884.1.\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: 4732
topology: circular
so has quality: SO_0000988
location: 1..4732
location: region:1-4732:1
RO_0002162: 29389

NZ_CP114884
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journal: Unpublished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:4732:1
position: 4732
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-4732:1:source
so part of: sequence
organism: Streptococcus alactolyticus
mol type: genomic DNA
strain: LGM
isolation source: colonic digesta
host: pig
plasmid: unnamed1
country: China:Nanjing
collection date: 2022-06-01

29389
type: Taxonomy
SIO_000068: taxonomy

O6R09_RS09205
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09205
old locus tag: O6R09_09205
so part of: sequence
location: 1..846
location: region:1-846:1
so has part: feature:1-846:1:exon
subclass of: SO_0000010

79927766
type: Gene
SIO_000068: ncbigene

position:846:1
position: 846
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1-846:1:exon

O6R09_RS09205
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09205
old locus tag: O6R09_09205
inference: COORDINATES: similar to AA sequence:RefSeq:WP_013646126.1
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: replication initiation protein
translation: MANEIVKHHNDLNTVIMRKWTAEEMNFFFAIIAKARNQGTKELVFDKYQLADLANYSLEHNQRFYETMDNLANNISKLRYIERTSHSVDYMALFTRFKVEWTEDLSDMKATVSISDKFEYIVNKLEANFTQYELEEFTSIRSTYAKTAYRLLKQWRTIGKKEFSKEEFKMLMDTPTYYQVSDIDRLVIKPILKELSQYFMGLKVKKIKSNKRGNPVLGYEFTWKPEKTGEWEDDKYKKNDFYKPKNSASNVPDWVEKEYKHSATAEEQAKLEELRRSMSED
SIO_010081: O6R09_RS09205
subclass of: SO_0000673
so part of: O6R09_RS09205
location: 1..846
location: region:1-846:1
so has part: feature:1-846:1:exon

WP_205402285.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1-846:1:exon

O6R09_RS09210
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09210
old locus tag: O6R09_09210
so part of: sequence
location: 957..1364
location: region:957-1364:1
so has part: feature:957-1364:1:exon
subclass of: SO_0000010

79927767
type: Gene
SIO_000068: ncbigene

position:957:1
position: 957
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1364:1
position: 1364
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:957-1364:1:exon

O6R09_RS09210
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09210
old locus tag: O6R09_09210
inference: COORDINATES: similar to AA sequence:RefSeq:WP_017643426.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MTERNELINDIQRLKAERNRLLEQIKEAEQWESASWDSYHALVDHINAMEKKQKIARNYWNTSQQDIKLQFESVLDQNNRLKKVIAKKRYDLLESELDKLTEEVRQLADVLGIEIDELPQDFPFFALPAEEIDNE
SIO_010081: O6R09_RS09210
subclass of: SO_0000673
so part of: O6R09_RS09210
location: 957..1364
location: region:957-1364:1
so has part: feature:957-1364:1:exon

WP_205402283.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:957-1364:1:exon

O6R09_RS09215
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09215
old locus tag: O6R09_09215
so part of: sequence
location: 1357..1944
location: region:1357-1944:1
so has part: feature:1357-1944:1:exon
subclass of: SO_0000010

79927768
type: Gene
SIO_000068: ncbigene

position:1357:1
position: 1357
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1944:1
position: 1944
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1357-1944:1:exon

O6R09_RS09215
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09215
old locus tag: O6R09_09215
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: MSKTTRELANLFGVTKQAIEKKYTPEFKAKYMSKVTTNGVPTWLVDDEGVNVLKTIFQDTNQTTNLGTNEVPTDDKILGVLEEQIKSQKNQIESLQKLLDQSQQLLLSEQKKSQLLIENQTPKTDVSREWKEKQAVLENQVSHYRNSANNANQRVREYQDWAERAEKGFWFAAILAGVFFVLLLVLGGLYFWGRN
SIO_010081: O6R09_RS09215
subclass of: SO_0000673
so part of: O6R09_RS09215
location: 1357..1944
location: region:1357-1944:1
so has part: feature:1357-1944:1:exon

WP_269725879.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1357-1944:1:exon

O6R09_RS09220
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09220
old locus tag: O6R09_09220
so part of: sequence
location: complement(2026..2706)
location: region:2026-2706:-1
so has part: feature:2026-2706:-1:exon
subclass of: SO_0000010

79927769
type: Gene
SIO_000068: ncbigene

position:2026:-1
position: 2026
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2706:-1
position: 2706
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2026-2706:-1:exon

O6R09_RS09220
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09220
old locus tag: O6R09_09220
inference: COORDINATES: similar to AA sequence:RefSeq:WP_064305258.1
GO function: GO:0004803 - transposase activity [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: IS6-like element IS1216 family transposase
translation: MNHFKGKQFQQDVIIVAVGYYLRYNLSYREVQEILYDRGINVSHTTIYRWVQEYGKLLYQIWKKKNKKSFYSWKMDETYIKIKGKWHYLYRAIDADGLTLDIWLRKKRDTQAAYAFLKRLVKQFDEPKVVVTDKAPSITSAFKKLKEYGFYQGTEHRTIKYLNNLIEQDHRPVKRRNKFYRSLRTASTTIKGMEAIRGLYKKTRKEGTLFGFSVCTEIKVLLGIPA
SIO_010081: O6R09_RS09220
subclass of: SO_0000673
so part of: O6R09_RS09220
location: complement(2026..2706)
location: region:2026-2706:-1
so has part: feature:2026-2706:-1:exon

WP_001015311.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2026-2706:-1:exon

O6R09_RS09225
type: Gene
subclass of: SO_0000704
RO_0002162: 29389
locus tag: O6R09_RS09225
old locus tag: O6R09_09225
so part of: sequence
location: 3510..3848
location: region:3510-3848:1
so has part: feature:3510-3848:1:exon
subclass of: SO_0000010

79927770
type: Gene
SIO_000068: ncbigene

position:3510:1
position: 3510
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:3848:1
position: 3848
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3510-3848:1:exon

O6R09_RS09225
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 29389
locus tag: O6R09_RS09225
old locus tag: O6R09_09225
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: MYEAAGIGKTMLEVSKELGVSKDVVKYHQRKMNSNESFKANGKIYITPAGVEKIKNGLRKDKEFYSVTFESKLMSQIDDLRSNQWHHEWKLEDVSKKLDSIDKKLDEILKRL
SIO_010081: O6R09_RS09225
subclass of: SO_0000673
so part of: O6R09_RS09225
location: 3510..3848
location: region:3510-3848:1
so has part: feature:3510-3848:1:exon

WP_205402287.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3510-3848:1:exon