Plasmid NZ_CP115395.1

Sequence

Nucleotide Information

Accession NZ_CP115395.1
Description Shigella sonnei strain 20-001-0088 plasmid 2020-001-0080_F, complete sequence
Source refseq
Topology circular
Length 83389 bp
GC Content 0.53 %
Created at NCBI Jan. 12, 2023



Biosample

Curated Collection Information

Accession 30328716

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query 33.868S;151.209E
Original Query Type coordinates
Coordinates (Lat/Lon) -33.87/151.21
Address Commonwealth Bank Building, 5, Martin Place, Quay Quarter, Sydney, Council of the City of Sydney, New South Wales, 2000, Australia

ECOSYSTEM
Original Query Homo sapiens,feces
Classification fecal,gastrointestinal_system,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




Similar Plasmids

based on Mash distance

NZ_MW396858.1 See Comparison
LR861790.1 See Comparison
NZ_CP115395.1 See Comparison
NZ_OP038287.1 See Comparison
NZ_OP038290.1 See Comparison
CP104426.1 See Comparison
CP104422.1 See Comparison
CP104420.1 See Comparison
CP104416.1 See Comparison
CP104412.1 See Comparison
CP104437.1 See Comparison
CP104433.1 See Comparison
NZ_CP101110.2 See Comparison
CP102116.1 See Comparison
NZ_CP140622.1 See Comparison
NZ_OQ291176.1 See Comparison
NZ_OQ291178.1 See Comparison
LR861790.1 See Comparison
NZ_MW396858.1 See Comparison
CP104426.1 See Comparison
NZ_OP038287.1 See Comparison
NZ_OP038290.1 See Comparison
CP104422.1 See Comparison
CP104420.1 See Comparison
CP104416.1 See Comparison
CP104412.1 See Comparison
CP104437.1 See Comparison
CP104433.1 See Comparison
NZ_OQ291176.1 See Comparison
NZ_CP101110.2 See Comparison
CP102116.1 See Comparison
NZ_OQ291178.1 See Comparison
NZ_CP140622.1 See Comparison
NZ_MW396858.1 See Comparison
LR861790.1 See Comparison
NZ_OP038287.1 See Comparison
NZ_OP038290.1 See Comparison
CP104426.1 See Comparison
CP104422.1 See Comparison
CP104420.1 See Comparison
CP104416.1 See Comparison
CP104412.1 See Comparison
CP104437.1 See Comparison
CP104433.1 See Comparison
NZ_OQ291176.1 See Comparison
NZ_CP101110.2 See Comparison
CP102116.1 See Comparison
NZ_OQ291178.1 See Comparison
NZ_CP140622.1 See Comparison
NZ_MW396858.1 See Comparison
LR861790.1 See Comparison
NZ_OP038287.1 See Comparison
NZ_OP038290.1 See Comparison
CP104426.1 See Comparison
CP104422.1 See Comparison
CP104420.1 See Comparison
CP104416.1 See Comparison
CP104412.1 See Comparison
CP104437.1 See Comparison
CP104433.1 See Comparison
NZ_OQ291176.1 See Comparison
CP102116.1 See Comparison
NZ_CP101110.2 See Comparison
NZ_OQ291178.1 See Comparison
NZ_MW396858.1 See Comparison
NZ_CP140622.1 See Comparison
CP102116.1 See Comparison
LR861790.1 See Comparison
NZ_OP038287.1 See Comparison
NZ_OP038290.1 See Comparison
CP104426.1 See Comparison
CP104422.1 See Comparison
CP104420.1 See Comparison
CP104416.1 See Comparison
CP104412.1 See Comparison
CP104437.1 See Comparison
CP104433.1 See Comparison
NZ_CP101110.2 See Comparison
NZ_CP140622.1 See Comparison
NZ_OQ291176.1 See Comparison
NZ_OQ291178.1 See Comparison
NZ_MW396858.1 See Comparison
NZ_OP038287.1 See Comparison
LR861790.1 See Comparison
NZ_OP038290.1 See Comparison
CP104426.1 See Comparison
CP104422.1 See Comparison
CP104420.1 See Comparison
CP104416.1 See Comparison
CP104412.1 See Comparison
CP104437.1 See Comparison
NZ_CP101110.2 See Comparison
CP104433.1 See Comparison
NZ_CP140622.1 See Comparison
CP102116.1 See Comparison
NZ_OQ291176.1 See Comparison
NZ_OQ291178.1 See Comparison


Plasmid Visualization


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