Plasmid NZ_AP028312.1

Sequence

Nucleotide Information

Accession NZ_AP028312.1
Description Escherichia coli strain OIPH-1902-010 plasmid p1902-010-2, complete sequence
Source refseq
Topology circular
Length 107337 bp
GC Content 0.50 %
Created at NCBI April 4, 2024



Assembly

Genome Data Information

Accession GCF_036508855.1
Assembly Coverage 50


Biosample

Curated Collection Information
Accession 38084914

PLASMID INFORMATION
Genotype ST354

GEOGRAPHICAL INFORMATION
Original Query 34.41N;135.31E
Original Query Type coordinates
Coordinates (Lat/Lon) 34.41/135.31
Address Prefectural Road 63, Wakamiyacho, Izumisano, Osaka Prefecture, 598-0055, Japan

ECOSYSTEM
Original Query Homo sapiens,urine
Classification host_associated,urinary_system
Host-associated Taxon
  • Homo sapiens (9606)

DISEASE
Original Query urinary tract infection
DOID/SYMP
  • Urinary tract infection (DOID:0080784 )
    • An urinary system disease that is characterized by an infection in any part of the urinary system, including the kidneys, ureters, bladder or urethra.

Visualization

PNG JSON

Plasmids from same Biosample



Similar Plasmids

based on Mash distance

NZ_AP028312.1 See Comparison


Plasmid Visualization

JSON GENBANK

SourceElement Name Display Sequence Favorite
amrfinderplusblaSHV-12copy
PGAGrepAcopy
PGAGmetalloregulator ArsR/SmtB family transcription factorcopy
PGAGpermeasecopy
PGAGProQ/FINO family proteincopy
PGAGAAA family ATPasecopy
PGAGhypothetical proteincopy
PGAGhypothetical proteincopy
PGAGIS6-like element IS26 family transposasecopy
PGAGPAS domain-containing methyl-accepting chemotaxis proteincopy
SourceElement NameDisplaySequenceFavorite
Showing 1 to 10 of 121 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
mate-pair-formationNC_019097_00056MPF_I5514157402minus98.8069201446
mate-pair-formationNC_022267_00057MPF_I6706768266minus98.251000761
mate-pair-formationNC_019111_00038MPF_I7304473421minus100942.5999999999999997e-47169
mate-pair-formationNC_023290_00086MPF_I7347573999minus99.4291003.4400000000000003e-100322
mate-pair-formationNC_015965_00072MPF_I7400274703minus99.5731004.56e-153477
mate-pair-formationNC_019097_00075MPF_I7599876978minus99.6941000657
mate-pair-formationNC_022267_00069MPF_I7703477681minus99.074915.71e-143448
mate-pair-formationNZ_CM001473_00069MPF_I7768178025minus91.3791001.6799999999999995e-54189
mate-pair-formationNC_019097_00085MPF_I8390184716minus1001004.32e-178550
oriTHM021326MOBP5191352005minus1001004.37e-41172
biomarkerMOB-suite IDElementStartEndStrandIdentityCoverageEvalueBitscore
Showing 1 to 10 of 12 entries


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