Plasmid NZ_CP008717.1

Sequence

Nucleotide Information

Accession NZ_CP008717.1
Description Escherichia coli strain ST648 isolate Pleural Effusion of Patients with Empyema Thoracis plasmid pEC648_3, complete sequence
Source refseq
Topology circular
Length 4237 bp
GC Content 0.41 %
Created at NCBI Jan. 27, 2016



Assembly

Genome Data Information

Accession GCF_001485455.1
Assembly Coverage None


Biosample

Curated Collection Information
Accession 2800875

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query 39.93N;116.35E
Original Query Type coordinates
Coordinates (Lat/Lon) 39.93/116.35
Address N. Fuchengmen Str, Xinjiekou, 首都功能核心区, Xicheng District, Beijing, 100032, China

ECOSYSTEM
Original Query Homo sapiens,Pleural Effusion
Classification host_associated,lung,respiratory_system
Host-associated Taxon
  • Homo sapiens (9606)

DISEASE
Original Query Empyema Thoracis
DOID/SYMP
  • Pleural empyema (DOID:3798 )
    • A soft tissue infectious disease that involves accumulation of pus in the pleural cavity as a result of infection within the lung (pneumonia) or a lung abscess spreading into the space. The symptoms include cough, fever, chest pain, sweating and shortness of breath.

Visualization

PNG JSON

Plasmids from same Biosample




Plasmid Visualization

JSON GENBANK

SourceElement Name Display Sequence Favorite
PGAGreplication/maintenance protein RepLcopy
PGAGtranscriptional regulatorcopy
PGAGEexN family lipoproteincopy
PGAGtype IV secretion system proteincopy
PGAGtype IV secretion system proteincopy
MOB-typerMPF_Tcopy
SourceElement NameDisplaySequenceFavorite
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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



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
mate-pair-formationNC_002144_00007MPF_T20912894plus89.552911.15e-160488
biomarkerMOB-suite IDElementStartEndStrandIdentityCoverageEvalueBitscore
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Detected typing markers by plasmidfinder
NUCCORE ACCTypingIdentityCoverageStartEndStrandOrganism L1Organism L2
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NUCCORE ACCTypingIdentityCoverageStartEndStrandOrganism L1Organism L2