Streptococcus agalactiae strain NGBS128 plasmid pNGBS128, complete sequence.
type: Entry
definition: Streptococcus agalactiae strain NGBS128 plasmid pNGBS128, complete sequence.
sequence version: NZ_CP012742.1
sequence date: 2023-03-13
sequence: sequence
division: CON
label: NZ_CP012742.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN04007140
keyword: RefSeq
source: Streptococcus agalactiae
organism: Streptococcus agalactiae
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Streptococcaceae; Streptococcus.
reference: 1
references: 26843175
reference: 2
reference: 3
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP012742.1.\nBacteria available from Nahuel Fittipaldi.\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##\nSequencing Technology :: PacBio; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 03/12/2023 21:55:53\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) :: 2,077\nCDSs (total) :: 1,960\nGenes (coding) :: 1,880\nCDSs (with protein) :: 1,880\nGenes (RNA) :: 117\nrRNAs :: 8, 8, 8 (5S, 16S, 23S)\ncomplete rRNAs :: 8, 8, 8 (5S, 16S, 23S)\ntRNAs :: 90\nncRNAs :: 3\nPseudo Genes (total) :: 80\nCDSs (without protein) :: 80\nPseudo Genes (ambiguous residues) :: 0 of 80\nPseudo Genes (frameshifted) :: 50 of 80\nPseudo Genes (incomplete) :: 22 of 80\nPseudo Genes (internal stop) :: 26 of 80\nPseudo Genes (multiple problems) :: 14 of 80\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 4944
topology: circular
so has quality: SO_0000988
location: 1..4944
location: region:1-4944:1
RO_0002162: 1311

NZ_CP012742
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN04007140
type: BioSample
SIO_000068: biosample

1
title: Clonal Complex 17 Group B Streptococcus strains causing invasive disease in neonates and adults originate from the same genetic pool
author: Teatero, S.
author: Ramoutar, E.
author: McGeer, A.
author: Li, A.
author: Melano, R.G.
author: Wasserscheid, J.
author: Dewar, K.
author: Fittipaldi, N.
journal: Sci Rep 6, 20047 (2016)
pubmed: 26843175
comments: Publication Status: Online-Only

26843175
type: PubMed
SIO_000068: pubmed

2
title: Associated plasmid for NGBS128
author: Fittipaldi, N.
journal: Unpublished

3
title: Direct Submission
author: Fittipaldi, N.
journal: Submitted (22-SEP-2015) Public Health Ontario, 661 University Avenue, Suite 19-100, Toronto, Canada

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

position:4944:1
position: 4944
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-4944:1:source
so part of: sequence
organism: Streptococcus agalactiae
mol type: genomic DNA
strain: NGBS128
host: Homo sapiens
plasmid: pNGBS128
country: Canada: Greater Toronto area/Peel
collection date: 2010
collected by: TIBDN

1311
type: Taxonomy
SIO_000068: taxonomy

AMM49_RS10360
type: Gene
subclass of: SO_0000704
RO_0002162: 1311
locus tag: AMM49_RS10360
old locus tag: AMM49_10360
so part of: sequence
location: complement(655..1656)
location: region:655-1656:-1
so has part: feature:655-1656:-1:exon
subclass of: SO_0000010

66886913
type: Gene
SIO_000068: ncbigene

position:655:-1
position: 655
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1656:-1
position: 1656
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:655-1656:-1:exon

AMM49_RS10360
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1311
locus tag: AMM49_RS10360
old locus tag: AMM49_10360
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: MNEQGFELSRGQLGSDKKHLSVADYKAKIGKEALNKELLGLGAPRYWHKEEDRPATAEEIAGYESLASLFAGEEMKLREATLEERFTWLDSHRNDLKGDLSHLEELVDKKIEEYTRIDSEASERLSELSELNSKVKDREKELRGLESDSERLSDKVVRLEKEHRETTQLLVEQNRNLRKISFQDLDRRRIAEDLHEELEKATPKLFGGSFNFTADFVGRLKTFMSEVVEKLEQVINQNEVLRKALEGMKQAKERAERELLQEEWKTQRLETENQNLRQENKELKVSKNLLEDIQEVITEKEVSSLNKRLDELREARMASKRGYEPKRSKGRSI
SIO_010081: AMM49_RS10360
subclass of: SO_0000673
so part of: AMM49_RS10360
location: complement(655..1656)
location: region:655-1656:-1
so has part: feature:655-1656:-1:exon

WP_079741871.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:655-1656:-1:exon

AMM49_RS11395
type: Gene
subclass of: SO_0000704
RO_0002162: 1311
locus tag: AMM49_RS11395
so part of: sequence
location: complement(1649..1984)
location: region:1649-1984:-1
so has part: feature:1649-1984:-1:exon
subclass of: SO_0000010

70079385
type: Gene
SIO_000068: ncbigene

position:1649:-1
position: 1649
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:1984:-1
position: 1984
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1649-1984:-1:exon

AMM49_RS11395
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1311
locus tag: AMM49_RS11395
inference: COORDINATES: protein motif:HMM:NF013258.2
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: plasmid recombination protein
translation: MSYLVARMQKMKVGNLGGAYRHNERVFENHSNKDIDTSRSHLNYELTDRDRSVSYEKQIKDYVNEKKSSKRAIRKDAGLCDEWIITSDKDFFERLDQEQTRAFFETAKIYE
SIO_010081: AMM49_RS11395
subclass of: SO_0000673
so part of: AMM49_RS11395
location: complement(1649..1984)
location: region:1649-1984:-1
so has part: feature:1649-1984:-1:exon

WP_235585363.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1649-1984:-1:exon

AMM49_RS11170
type: Gene
subclass of: SO_0000704
RO_0002162: 1311
gene: ermCL
locus tag: AMM49_RS11170
so part of: sequence
location: 2509..2568
location: region:2509-2568:1
so has part: feature:2509-2568:1:exon
subclass of: SO_0000010

66886964
type: Gene
SIO_000068: ncbigene

position:2509:1
position: 2509
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:2568:1
position: 2568
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2509-2568:1:exon

AMM49_RS11170
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1311
gene: ermCL
locus tag: AMM49_RS11170
inference: COORDINATES: similar to AA sequence:RefSeq:WP_002497446.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: 23S rRNA methylase leader peptide ErmCL
translation: MGIFSIFVINTVHYQPNKK
SIO_010081: AMM49_RS11170
subclass of: SO_0000673
so part of: AMM49_RS11170
location: 2509..2568
location: region:2509-2568:1
so has part: feature:2509-2568:1:exon

WP_002503927.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2509-2568:1:exon

AMM49_RS10365
type: Gene
subclass of: SO_0000704
RO_0002162: 1311
locus tag: AMM49_RS10365
old locus tag: AMM49_10365
so part of: sequence
location: 2628..3362
location: region:2628-3362:1
so has part: feature:2628-3362:1:exon
subclass of: SO_0000010

66886914
type: Gene
SIO_000068: ncbigene

position:2628:1
position: 2628
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

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

urn:…
SIO_000300: 1
SIO_000628: feature:2628-3362:1:exon

AMM49_RS10365
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1311
locus tag: AMM49_RS10365
old locus tag: AMM49_10365
inference: COORDINATES: similar to AA sequence:RefSeq:WP_011282421.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: 23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(T)
translation: MNKKNIKDSQNFITSKHHINEILRNVHLNTNDNIIEIGSGKGHFTFELAKRCNYVTAIEIDPKLCRITKNKLIEYENFQVINKDILQFKFPKNKSYKIYGNIPYNISTDIIRKIVFESTATESYLIVEYGFAKRLLNTNRSLALFLMTEVDISILSKIPREYFHPKPRVNSSLIVLKRHPSKISLKDRKQYENFVMKWVNKEYIKLFSKNQFYQALKYARIDDLNNISFEQFLSLFNSYKLFNR
SIO_010081: AMM49_RS10365
subclass of: SO_0000673
so part of: AMM49_RS10365
location: 2628..3362
location: region:2628-3362:1
so has part: feature:2628-3362:1:exon

WP_002345002.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2628-3362:1:exon

AMM49_RS10375
type: Gene
subclass of: SO_0000704
RO_0002162: 1311
locus tag: AMM49_RS10375
old locus tag: AMM49_10375
so part of: sequence
location: complement(3750..3956)
location: region:3750-3956:-1
so has part: feature:3750-3956:-1:exon
subclass of: SO_0000010

66886915
type: Gene
SIO_000068: ncbigene

position:3750:-1
position: 3750
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3956:-1
position: 3956
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3750-3956:-1:exon

AMM49_RS10375
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1311
locus tag: AMM49_RS10375
old locus tag: AMM49_10375
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010010243.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: hypothetical protein
translation: MEIFDKYYDEHNLEERSQYSGFSKKQLVIEAEHLENALSRVLVYLENNGDDLDFIRTEVMDGLYESRI
SIO_010081: AMM49_RS10375
subclass of: SO_0000673
so part of: AMM49_RS10375
location: complement(3750..3956)
location: region:3750-3956:-1
so has part: feature:3750-3956:-1:exon

WP_023612084.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3750-3956:-1:exon

AMM49_RS10380
type: Gene
subclass of: SO_0000704
RO_0002162: 1311
locus tag: AMM49_RS10380
old locus tag: AMM49_10380
so part of: sequence
location: complement(3943..4608)
location: region:3943-4608:-1
so has part: feature:3943-4608:-1:exon
subclass of: SO_0000010

66886916
type: Gene
SIO_000068: ncbigene

position:3943:-1
position: 3943
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4608:-1
position: 4608
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3943-4608:-1:exon

AMM49_RS10380
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1311
locus tag: AMM49_RS10380
old locus tag: AMM49_10380
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010889904.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication protein
translation: MAKEKSRNFTFLLYPDGDGFPSDWEERLEKIGVPIAISPLHDKDKNKNRTLKKPHYHGIYIANNPVTAESVKNKLRAVLSSEDVECKAVAKVQIIYESIESVYLYLTHESKDAIKKNKYRYDKADIKHINNFDIDRYVVVDVETKNQILKILLQIIRAYSIPNVLDLHDFIEENGSSYGIDMNLFLTTIESKSSILRLYFDGAYQRGQRGLKSGEEKNGNI
SIO_010081: AMM49_RS10380
subclass of: SO_0000673
so part of: AMM49_RS10380
location: complement(3943..4608)
location: region:3943-4608:-1
so has part: feature:3943-4608:-1:exon

WP_012301162.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3943-4608:-1:exon

AMM49_RS10385
type: Gene
subclass of: SO_0000704
RO_0002162: 1311
locus tag: AMM49_RS10385
old locus tag: AMM49_10385
so part of: sequence
location: complement(4663..4836)
location: region:4663-4836:-1
so has part: feature:4663-4836:-1:exon
subclass of: SO_0000010

66886917
type: Gene
SIO_000068: ncbigene

position:4663:-1
position: 4663
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:4836:-1
position: 4836
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:4663-4836:-1:exon

AMM49_RS10385
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1311
locus tag: AMM49_RS10385
old locus tag: AMM49_10385
inference: COORDINATES: similar to AA sequence:RefSeq:WP_010889903.1
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: CopG family transcriptional regulator
translation: MSKKEKGVIMAKKRMGISLSEEVAEMLEKQAKEAGLNKSALITTLIVKENKNQDRKV
SIO_010081: AMM49_RS10385
subclass of: SO_0000673
so part of: AMM49_RS10385
location: complement(4663..4836)
location: region:4663-4836:-1
so has part: feature:4663-4836:-1:exon

WP_224784350.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:4663-4836:-1:exon