Plasmid NZ_CP053235.1

Sequence

Nucleotide Information

Accession NZ_CP053235.1
Description Escherichia coli strain SCU-106 plasmid pSCU-106-1, complete sequence
Source refseq
Topology circular
Length 159399 bp
GC Content 0.49 %
Created at NCBI May 15, 2020



Assembly

Genome Data Information

Accession GCF_013085185.1
Assembly Coverage 14


Biosample

Curated Collection Information
Accession 14609771

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query USA,California
Original Query Type name
Coordinates (Lat/Lon) 36.70/-118.76
Address USA,California

ECOSYSTEM
Original Query Homo sapiens,whole organism,rectal swab from healthy college student
Classification gastrointestinal_system,host_associated,rectal
Host-associated Taxon
  • Homo sapiens (9606)

DISEASE
Original Query None
DOID/SYMP

Visualization

PNG JSON

Plasmids from same Biosample



Similar Plasmids

based on Mash distance

NZ_CP053235.1 See Comparison


Plasmid Visualization

JSON GENBANK

SourceElement Name Display Sequence Favorite
amrfinderplusireAcopy
amrfinderpluscapUcopy
PGAGrepAcopy
PGAGantitoxincopy
PGAGtype II toxin-antitoxin system RelE/ParE family toxincopy
PGAGserine acetyltransferasecopy
PGAGpolysaccharide deacetylase family proteincopy
PGAGvirKcopy
PGAGlpxMcopy
PGAGhypothetical proteincopy
SourceElement NameDisplaySequenceFavorite
Showing 1 to 10 of 163 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_011754_00087MPF_I8064082940minus97.65310001400
mate-pair-formationNC_014843_00047MPF_I115105116307minus95.0121000697
mate-pair-formationNC_007365_00035MPF_I122512122907minus94.6971001.65e-62212
mate-pair-formationNC_011754_00109MPF_I122957123484minus92.0451004.12e-87285
mate-pair-formationNC_007365_00033MPF_I123484124194minus97.891002.73e-153478
mate-pair-formationNC_022371_00084MPF_I125529126500minus91.3581002.49e-178554
mate-pair-formationNC_012487_00131MPF_I126517127206minus91.304994.3299999999999996e-138434
mate-pair-formationNC_022992_00098MPF_I127221127568minus1001001.51e-50177
mate-pair-formationNC_022992_00102MPF_I133138133971minus95.6831001.03e-166518
relaxaseNC_013728_00087MOBP7663279340plus89.51410001616
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