Plasmid NZ_CP050710.1

Sequence

Nucleotide Information

Accession NZ_CP050710.1
Description Salmonella enterica subsp. enterica serovar Enteritidis strain SE109 plasmid pSE109-1, complete sequence
Source refseq
Topology circular
Length 90315 bp
GC Content 0.52 %
Created at NCBI April 8, 2020



Assembly

Genome Data Information

Accession GCF_012050205.1
Assembly Coverage 81


Biosample

Curated Collection Information
Accession 14450173

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query 31.23N;121.47E
Original Query Type coordinates
Coordinates (Lat/Lon) 31.23/121.47
Address People's Square, 120, People's Avenue, Jiangyin, Nanjingdonglu Subdistrict, Shanghai, Huangpu District, Shanghai, 200001, China

ECOSYSTEM
Original Query Homo sapiens,Diarrheal patient
Classification disease,fecal,gastrointestinal_system,host_associated
Host-associated Taxon
  • Homo sapiens (9606)

DISEASE
Original Query None
DOID/SYMP
  • Diarrhea (DOID:13250 )
    • A gastrointestinal system disease described as the condition of having frequent loose or liquid bowel movements. Acute diarrhea is a common cause of death in developing countries and the second most common cause of infant deaths worldwide. The loss of fluids through diarrhea can cause severe dehydration which is one cause of death in diarrhea sufferers. Along with water, sufferers also lose dangerous amounts of important salts, electrolytes, and other nutrients. There are at least four types of diarrhea: secretory diarrhea, osmotic diarrhea, motility-related diarrhea, and inflammatory diarrhea.

Visualization

PNG JSON

Plasmids from same Biosample




Identical Plasmids

100% Sequence Identity

  • Sequence
    • Accession: NZ_CP050717.1
    • Description: Salmonella enterica subsp. enterica serovar Enteritidis strain SE95 plasmid pSE95-1, complete sequence
    • Source: refseq
    • Created at NCBI: April 8, 2020

  • Host Taxonomy
    Assigned Host: Salmonella enterica (149539)
  • Biosample
    Accession: 14450171
  • GEOGRAPHICAL INFORMATION
    • Original Query: 31.23N;121.47E
    • Original Query Type: coordinates
    • Address: People's Square, 120, People's Avenue, Jiangyin, Nanjingdonglu Subdistrict, Shanghai, Huangpu District, Shanghai, 200001, China
    • Coordinates (Lat/Lon): 31.23/121.47
  • ECOSYSTEM
    • Original Query: Homo sapiens,Diarrheal patient
    • Classification: disease,fecal,gastrointestinal_system,host_associated
    • Host-associated Taxon:
      • Homo sapiens (9606)
  • DISEASE
    • Original Query: None
    • DOID/SYMP:
      • Diarrhea (DOID:13250 )
        • A gastrointestinal system disease described as the condition of having frequent loose or liquid bowel movements. Acute diarrhea is a common cause of death in developing countries and the second most common cause of infant deaths worldwide. The loss of fluids through diarrhea can cause severe dehydration which is one cause of death in diarrhea sufferers. Along with water, sufferers also lose dangerous amounts of important salts, electrolytes, and other nutrients. There are at least four types of diarrhea: secretory diarrhea, osmotic diarrhea, motility-related diarrhea, and inflammatory diarrhea.

    • Visualization

    PNG JSON

Plasmid Visualization

JSON GENBANK

SourceElement Name Display Sequence Favorite
amrfinderplusaph(3')-IIacopy
rgiTEM-244copy
amrfinderplusoqxA2copy
amrfinderplusoqxBcopy
amrfinderplusblaCTX-M-55copy
rgioqxAcopy
PGAGrepAcopy
PGAGIS91 family transposasecopy
PGAGhypothetical proteincopy
PGAGhypothetical proteincopy
SourceElement NameDisplaySequenceFavorite
Showing 1 to 10 of 119 entries
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Annotations

based on the NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
NUCCORE ACCGeneLocus TagProductProtein idCodon StartTranslation TableGO process
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NUCCORE ACCGeneLocus TagProductProtein idCodon StartTranslation TableGO process



Antimicrobial Resistance

based on NCBIAMRFinder and CARD
NUCCORE ACCAnalysis Software NameReference Database VersionGene SymbolGene NameDrug ClassAntimicrobial AgentGene StartGene StopGene LengthStrand OrientationSequence Identity (%)Coverage (%)
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NUCCORE ACCAnalysis Software NameReference Database VersionGene SymbolGene NameDrug ClassAntimicrobial AgentGene StartGene StopGene LengthStrand OrientationSequence Identity (%)Coverage (%)



Typing

based on MOB-Typer and Plasmid Multilocus Sequencing Typing (PMLST)
NUCCORE ACCReplicon TypeRelaxase TypeMPF Type OriT Type Predicted Mobility Primary Cluster ID Secondary Cluster ID Observed Host Range Ncbi NameMash Neighbor DistanceReported Host Range Lit Rank
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NUCCORE ACCReplicon TypeRelaxase TypeMPF TypeOriT TypePredicted MobilityPrimary Cluster IDSecondary Cluster IDObserved Host Range Ncbi NameMash Neighbor DistanceReported Host Range Lit Rank




BLAST results of detected typing markers by MOB-type
biomarkerMOB-suite IDElementStartEndStrandIdentityCoverageEvalueBitscore
oriTAP014804MOBP5283853307plus88.494854.93e-158564
repliconMH263653_00001IncFIA103858plus10010001397
replicon000215__KC853434_00019IncX11760418050plus1001000826
repliconJN232517IncFII9005990315minus100991.05e-131475
relaxaseNC_017627_00068MOBF8065685923plus97.3810003339
mate-pair-formationNC_022651_00077MPF_F5536955677plus100994.39e-63213
mate-pair-formationNC_010409_00124MPF_F5625556980plus98.761004.19e-156486
mate-pair-formationNC_019094_00090MPF_F5698358377plus95.923960832
mate-pair-formationNC_017639_00094MPF_F5943459946plus97.0761003.9000000000000004e-98316
mate-pair-formationNC_013437_00116MPF_T6046563086plus90.5039901640
biomarkerMOB-suite IDElementStartEndStrandIdentityCoverageEvalueBitscore
Showing 1 to 10 of 16 entries


Detected typing markers by plasmidfinder
NUCCORE ACCTypingIdentityCoverageStartEndStrandOrganism L1Organism L2
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NUCCORE ACCTypingIdentityCoverageStartEndStrandOrganism L1Organism L2