Plasmid NZ_CP127082.1

Sequence

Nucleotide Information

Accession NZ_CP127082.1
Description Shigella flexneri 1b strain SF-018-002 plasmid psflex002A, complete sequence
Source refseq
Topology circular
Length 215531 bp
GC Content 0.46 %
Created at NCBI Nov. 23, 2023



Assembly

Genome Data Information

Accession GCF_033870415.1
Assembly Coverage 100


Biosample

Curated Collection Information
Accession 35361129

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query 43.6N;79.4W
Original Query Type coordinates
Coordinates (Lat/Lon) 43.60/-79.40
Address Golden Horseshoe, Ontario, Canada

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

DISEASE
Original Query shigellosis
DOID/SYMP
  • Shigellosis (DOID:12385 )
    • A primary bacterial infectious disease that results_in infection located_in epithelium of colon, has_material_basis_in Shigella boydii, has_material_basis_in Shigella dysenteriae, has_material_basis_in Shigella flexneri, or has_material_basis_in Shigella sonnei, which produce toxins that can attack the lining of the large intestine, causing swelling, ulcers on the intestinal wall, and bloody diarrhea. The bacteria are transmitted_by ingestion of food and water contaminated with feces.
    • Has_material_basis_in: ['shigella boydii', 'shigella dysenteriae', 'shigella flexneri', 'shigella sonnei']

Visualization

PNG JSON

Plasmids from same Biosample




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