Plasmid NZ_CP012682.1

Sequence

Nucleotide Information

Accession NZ_CP012682.1
Description Salmonella enterica subsp. enterica serovar Typhimurium strain 33676 plasmid p33676_IncA/C, complete sequence
Source refseq
Topology circular
Length 161461 bp
GC Content 0.53 %
Created at NCBI Sept. 22, 2015



Assembly

Genome Data Information

Accession GCF_001293505.1
Assembly Coverage 119


Biosample

Curated Collection Information
Accession 3795193

PLASMID INFORMATION
Genotype ST213

GEOGRAPHICAL INFORMATION
Original Query 19.43N;99.13W
Original Query Type coordinates
Coordinates (Lat/Lon) 19.43/-99.13
Address KFC, 70, Correo Mayor, Centro, Mexico City, Cuauhtémoc, Mexico City, 06060, Mexico

ECOSYSTEM
Original Query Homo sapiens; female,blood,blood-culture
Classification blood,cell_culture,circulatory_system,host_associated
Host-associated Taxon
  • Homo sapiens (9606)
Host-associated Age fifteen years
Host-associated Sex female

DISEASE
Original Query Salmonellosis,recovered,febrile illness with invasive severe pancolitis
DOID/SYMP
  • Salmonellosis (DOID:0060859 )
    • A primary bacterial infectious disease caused by the bacteria of the genus Salmonella. It has symptoms diarrhea, fever, vomiting, and abdominal cramps 12 to 72 hours after infection. In most cases, the illness lasts four to seven days, and most people recover without treatment.
  • Colitis (DOID:0060180 )
    • An inflammatory bowel disease that involves inflammation located_in colon.

Visualization

PNG JSON

Plasmids from same Biosample



Similar Plasmids

based on Mash distance

NZ_CP012682.1 See Comparison


Plasmid Visualization

JSON GENBANK

NUCCORE ACC Source Element Name Display Sequence Favorite
NUCCORE ACC Source Element Name Display Sequence Favorite



Annotations

based on the NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
NUCCORE ACC Gene Locus Tag Product Protein id Codon Start Translation Table GO process
NUCCORE ACC Gene Locus Tag Product Protein id Codon Start Translation Table GO process



Antimicrobial Resistance

based on NCBIAMRFinder and CARD
NUCCORE ACC Analysis Software Name Reference Database Version Gene Symbol Gene Name Drug Class Antimicrobial Agent Gene Start Gene Stop Gene Length Strand Orientation Sequence Identity (%) Coverage (%)
NUCCORE ACC Analysis Software Name Reference Database Version Gene Symbol Gene Name Drug Class Antimicrobial Agent Gene Start Gene Stop Gene Length Strand Orientation Sequence Identity (%) Coverage (%)



Typing

based on MOB-Typer and Plasmid Multilocus Sequencing Typing (PMLST)
NUCCORE ACC Contigs md5 hash Replicon Type Relaxase Type MPF Type OriT Type Predicted Mobility Primary Cluster ID Secondary Cluster ID Observed Host Range Ncbi Rank Observed Host Range Ncbi Name Mash Nearest Neighbor Mash Neighbor Distance Mash Neighbor Identification Reported Host Range Lit Rank Reported Host Range Lit Name Replicon Type Accession Relaxase Type Accession MPF Type Accession OriT Type Accession Associated PMID(s)
NUCCORE ACC Contigs md5 hash Replicon Type Relaxase Type MPF Type OriT Type Predicted Mobility Primary Cluster ID Secondary Cluster ID Observed Host Range Ncbi Rank Observed Host Range Ncbi Name Mash Nearest Neighbor Mash Neighbor Distance Mash Neighbor Identification Reported Host Range Lit Rank Reported Host Range Lit Name Replicon Type Accession Relaxase Type Accession MPF Type Accession OriT Type Accession Associated PMID(s)




BLAST results of detected typing markers by MOB-type
NUCCORE ACC biomarker MOB-suite ID Element Start End Strand Identity Coverage Evalue Bitscore
NUCCORE ACC biomarker MOB-suite ID Element Start End Strand Identity Coverage Evalue Bitscore


Detected typing markers by plasmidfinder
NUCCORE ACC Typing Identity Coverage Start End Strand HSP length Template length Position in ref Positions in Contig Note Accession Hit id Organism L1 Organism L2
NUCCORE ACC Typing Identity Coverage Start End Strand HSP length Template length Position in ref Positions in Contig Note Accession Hit id Organism L1 Organism L2