Streptococcus mutans strain NCH105 plasmid pMut2, complete sequence.
type: Entry
definition: Streptococcus mutans strain NCH105 plasmid pMut2, complete sequence.
sequence version: NZ_CP044220.1
sequence date: 2022-12-23
sequence: sequence
division: CON
label: NZ_CP044220.1
type: RefSeq
SIO_000068: refseq
dblink: PRJNA224116
dblink: SAMN12797732
keyword: RefSeq
source: Streptococcus mutans
organism: Streptococcus mutans
taxonomy: Bacteria; Bacillota; Bacilli; Lactobacillales; Streptococcaceae; Streptococcus.
reference: 1
reference: 2
comment: REFSEQ INFORMATION: The reference sequence is identical to\nCP044220.1.\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 :: 10-SEP-2019\nAssembly Method :: SPAdes v. 3.9.0\nAssembly Name :: UCHC_Smut_1.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 175.0x\nSequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Date :: 12/23/2022 02:57:22\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) :: 2,002\nCDSs (total) :: 1,918\nGenes (coding) :: 1,870\nCDSs (with protein) :: 1,870\nGenes (RNA) :: 84\nrRNAs :: 5, 5, 5 (5S, 16S, 23S)\ncomplete rRNAs :: 5, 5, 5 (5S, 16S, 23S)\ntRNAs :: 65\nncRNAs :: 4\nPseudo Genes (total) :: 48\nCDSs (without protein) :: 48\nPseudo Genes (ambiguous residues) :: 0 of 48\nPseudo Genes (frameshifted) :: 26 of 48\nPseudo Genes (incomplete) :: 29 of 48\nPseudo Genes (internal stop) :: 19 of 48\nPseudo Genes (multiple problems) :: 18 of 48\nCRISPR Arrays :: 1\n##Genome-Annotation-Data-END##\nCOMPLETENESS: full length.

sequence
subclass of: SO_0000155
sequence length: 4688
topology: circular
so has quality: SO_0000988
location: 1..4688
location: region:1-4688:1
RO_0002162: 1309

NZ_CP044220
type: RefSeq
SIO_000068: refseq

PRJNA224116
type: BioProject
SIO_000068: bioproject

SAMN12797732
type: BioSample
SIO_000068: biosample

1
title: Complete genome of Streptococcus mutans NCH105, a fluoride resistant strain
author: Garrett, S.C.
author: Graveley, B.R.
author: Olson, S.
journal: Unpublished

2
title: Direct Submission
author: Garrett, S.C.
author: Graveley, B.R.
author: Olson, S.
journal: Submitted (20-SEP-2019) Genetics and Genome Sciences, UConn Health, 400 Farmington Ave., Farmington, CT 06032, USA

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

position:4688:1
position: 4688
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

feature:1-4688:1:source
so part of: sequence
organism: Streptococcus mutans
mol type: genomic DNA
strain: NCH105
host: Homo sapiens
culture collection: ATCC:700069
plasmid: pMut2
country: USA:Charlotte
collection date: 1996-03
collected by: Michael Hudson

1309
type: Taxonomy
SIO_000068: taxonomy

F5989_RS00045
type: Gene
subclass of: SO_0000704
RO_0002162: 1309
locus tag: F5989_RS00045
old locus tag: F5989_00045
so part of: sequence
location: 112..1470
location: region:112-1470:1
so has part: feature:112-1470:1:exon
subclass of: SO_0000010

66817248
type: Gene
SIO_000068: ncbigene

position:112:1
position: 112
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

position:1470:1
position: 1470
reference: sequence
type: ForwardStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:112-1470:1:exon

F5989_RS00045
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1309
locus tag: F5989_RS00045
old locus tag: F5989_00045
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: MobV family relaxase
translation: MSYSIIRMQKMKGNAIKGIQFHNQRERESETNPDINYDDSHLNYDLINGQQKIDYNEKINKVIEENVTSNKAIRKDAVRLAEFLITSDKEFFEKSSPQEQKRYFETAHEFLADRYGEKNLIYATIHNDEKTPHMHVGFVPVTEDGRLSAKDFFGQKKQLVSLQDDFNDYLKQNDFELERGVSSSRKHLETAKYKALTFQSMEKESQEKYERTMGHIQEIDDKTKSITDIEAKKVWGLDVVHMKEQDYKNLVNYATNGVAYQLEAENLQKELDKAKTEVEQLKSEMQTGQDKIRQNYKDIRDNLDSAAEKKAMQKFEQLDVVKNHRELIGKYNGLAKNFNDQLVEKKQLKQKVDILTMENWSYQNENRDLKLENGKLKEKLMQISKEFSAYKEKVKHVLHAQIDRIKTFLRIHDVDRGTIKLLEGRQDKLVQDSLEKLQKPQREKEHGMEIER
SIO_010081: F5989_RS00045
subclass of: SO_0000673
so part of: F5989_RS00045
location: 112..1470
location: region:112-1470:1
so has part: feature:112-1470:1:exon

WP_156294849.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:112-1470:1:exon

F5989_RS00050
type: Gene
subclass of: SO_0000704
RO_0002162: 1309
locus tag: F5989_RS00050
old locus tag: F5989_00050
so part of: sequence
location: complement(1520..2032)
location: region:1520-2032:-1
so has part: feature:1520-2032:-1:exon
subclass of: SO_0000010

66817249
type: Gene
SIO_000068: ncbigene

position:1520:-1
position: 1520
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2032:-1
position: 2032
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:1520-2032:-1:exon

F5989_RS00050
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1309
locus tag: F5989_RS00050
old locus tag: F5989_00050
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: MKKVLVSVLSLSMLLFGSLVIKPSESEAAAIICKGGYVKSIYSAAGGRVNIEYQDYYLDVKGGRQFASKMGSSPSKAILWFAASWIPAAGPYIGSMTFLSDLNASMAADKIRSYTDNNKKVHVTVGRDKVNGGLANYIVKGWDGSAKSIKAFEVPAPQYQYVQFTTWDYY
SIO_010081: F5989_RS00050
subclass of: SO_0000673
so part of: F5989_RS00050
location: complement(1520..2032)
location: region:1520-2032:-1
so has part: feature:1520-2032:-1:exon

WP_156294850.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:1520-2032:-1:exon

F5989_RS00055
type: Gene
subclass of: SO_0000704
RO_0002162: 1309
locus tag: F5989_RS00055
old locus tag: F5989_00055
so part of: sequence
location: complement(2109..2297)
location: region:2109-2297:-1
so has part: feature:2109-2297:-1:exon
subclass of: SO_0000010

66817250
type: Gene
SIO_000068: ncbigene

position:2109:-1
position: 2109
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2297:-1
position: 2297
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2109-2297:-1:exon

F5989_RS00055
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1309
locus tag: F5989_RS00055
old locus tag: F5989_00055
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: MLKNQNLISYIGQIVMGFAALCLALKFLSILLSTCLFFFGVFLLIFGYWKKRKKEGAKYSKF
SIO_010081: F5989_RS00055
subclass of: SO_0000673
so part of: F5989_RS00055
location: complement(2109..2297)
location: region:2109-2297:-1
so has part: feature:2109-2297:-1:exon

WP_156294851.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2109-2297:-1:exon

F5989_RS00060
type: Gene
subclass of: SO_0000704
RO_0002162: 1309
locus tag: F5989_RS00060
old locus tag: F5989_00060
so part of: sequence
location: complement(2365..2853)
location: region:2365-2853:-1
so has part: feature:2365-2853:-1:exon
subclass of: SO_0000010

66817251
type: Gene
SIO_000068: ncbigene

position:2365:-1
position: 2365
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:2853:-1
position: 2853
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:2365-2853:-1:exon

F5989_RS00060
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1309
locus tag: F5989_RS00060
old locus tag: F5989_00060
inference: COORDINATES: similar to AA sequence:RefSeq:WP_016111091.1
GO process: GO:0006260 - DNA replication [Evidence IEA]; GO:0006276 - plasmid maintenance [Evidence IEA]
note: Derived by automated computational analysis using gene prediction method: Protein Homology.
codon start: 1
transl table: 11
product: replication/maintenance protein RepL
translation: MQQDRPLKKVSKVIRNKITDLQSGEIRHEEELIDAYVEKEPDYVKLYLKDIVALNDLPKGLDRVINVLLKTMSYDNMIILNSFIKKQMTEELGYSSVQVLNNNINKLVNAEILFRKGTGTYQVNALYFGRGHWNDIQEIRLQQRYSENGRDFKADIIYKENT
SIO_010081: F5989_RS00060
subclass of: SO_0000673
so part of: F5989_RS00060
location: complement(2365..2853)
location: region:2365-2853:-1
so has part: feature:2365-2853:-1:exon

WP_156294854.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:2365-2853:-1:exon

F5989_RS00065
type: Gene
subclass of: SO_0000704
RO_0002162: 1309
locus tag: F5989_RS00065
old locus tag: F5989_00065
so part of: sequence
location: complement(3499..3714)
location: region:3499-3714:-1
so has part: feature:3499-3714:-1:exon
subclass of: SO_0000010

66817252
type: Gene
SIO_000068: ncbigene

position:3499:-1
position: 3499
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3714:-1
position: 3714
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3499-3714:-1:exon

F5989_RS00065
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1309
locus tag: F5989_RS00065
old locus tag: F5989_00065
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: MKKLRIYKENGEFVIERVNQFDHATKRFFTSEEGLKEGLQAYQPVMDEYELEVSDELWAFVINFLNSKEFQ
SIO_010081: F5989_RS00065
subclass of: SO_0000673
so part of: F5989_RS00065
location: complement(3499..3714)
location: region:3499-3714:-1
so has part: feature:3499-3714:-1:exon

WP_156294852.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3499-3714:-1:exon

F5989_RS00070
type: Gene
subclass of: SO_0000704
RO_0002162: 1309
locus tag: F5989_RS00070
old locus tag: F5989_00070
so part of: sequence
location: complement(3711..3926)
location: region:3711-3926:-1
so has part: feature:3711-3926:-1:exon
subclass of: SO_0000010

66817253
type: Gene
SIO_000068: ncbigene

position:3711:-1
position: 3711
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

position:3926:-1
position: 3926
reference: sequence
type: ReverseStrandPosition
type: ExactPosition

urn:…
SIO_000300: 1
SIO_000628: feature:3711-3926:-1:exon

F5989_RS00070
type: Coding Sequence
subclass of: SO_0000316
RO_0002162: 1309
locus tag: F5989_RS00070
old locus tag: F5989_00070
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: MSKQINIRLDAVHQELLEKMVKKLEQEGVNTNKTDVIQKALYRFARESVLDPTEVTEIIDRHYKGFWEENL
SIO_010081: F5989_RS00070
subclass of: SO_0000673
so part of: F5989_RS00070
location: complement(3711..3926)
location: region:3711-3926:-1
so has part: feature:3711-3926:-1:exon

WP_156294853.1
type: Protein
SIO_000068: ncbiprotein

urn:…
SIO_000300: 1
SIO_000628: feature:3711-3926:-1:exon