Plasmid NZ_CP029691.1

Sequence

Nucleotide Information

Accession NZ_CP029691.1
Description Escherichia coli strain SD134209 plasmid pSD134209-2, complete sequence
Source refseq
Topology circular
Length 78329 bp
GC Content 0.50 %
Created at NCBI June 16, 2018



Assembly

Genome Data Information

Accession GCF_003203755.1
Assembly Coverage 200


Biosample

Curated Collection Information

Accession 9278797

PLASMID INFORMATION

GEOGRAPHICAL INFORMATION
Original Query 44.57N;100.87W
Original Query Type coordinates
Coordinates (Lat/Lon) 44.57/-100.87
Address Woolley Place, Triple U Buffalo Ranch, Stanley County, South Dakota, United States

ECOSYSTEM
Original Query Homo sapiens,feces
Classification fecal,gastrointestinal_system,host_associated
Host-associated Taxon
  • Homo sapiens (9606)

DISEASE
Original Query bloody diarrhea
DOID/SYMP
  • Diarrhea (DOID:13250 )
  • A gastrointestinal system disease described as the condition of having frequent loose or liquid bowel movements. Acute diarrhea is a common cause of death in developing countries and the second most common cause of infant deaths worldwide. The loss of fluids through diarrhea can cause severe dehydration which is one cause of death in diarrhea sufferers. Along with water, sufferers also lose dangerous amounts of important salts, electrolytes, and other nutrients. There are at least four types of diarrhea: secretory diarrhea, osmotic diarrhea, motility-related diarrhea, and inflammatory diarrhea.

Visualization


Plasmids from same Biosample



Similar Plasmids

based on Mash distance

NZ_AP018805.1 See Comparison
NZ_AP018800.1 See Comparison
NZ_CP028431.1 See Comparison
NZ_CP028434.1 See Comparison
NZ_CP028118.1 See Comparison
NZ_CP027576.1 See Comparison
NC_013366.1 See Comparison
NZ_CP028431.1 See Comparison
NZ_AP018805.1 See Comparison
NZ_AP018800.1 See Comparison
NZ_AP019763.1 See Comparison
NZ_CP028434.1 See Comparison
NC_013366.1 See Comparison
NZ_CP028118.1 See Comparison
NZ_CP027576.1 See Comparison
NZ_AP018805.1 See Comparison
NZ_AP019763.1 See Comparison
NZ_AP018800.1 See Comparison
NZ_CP028431.1 See Comparison
NZ_CP028434.1 See Comparison
NZ_CP029691.1 See Comparison
NZ_CP028118.1 See Comparison
NZ_CP027576.1 See Comparison
NC_013366.1 See Comparison
NZ_AP018805.1 See Comparison
NZ_AP018800.1 See Comparison
NZ_CP028431.1 See Comparison
NZ_CP028434.1 See Comparison
NZ_CP028118.1 See Comparison
NZ_CP027576.1 See Comparison
NC_013366.1 See Comparison
NZ_CP028431.1 See Comparison
NZ_CP028434.1 See Comparison
NZ_CP028118.1 See Comparison
NZ_CP027576.1 See Comparison
NC_013366.1 See Comparison
NZ_AP019763.1 See Comparison
NZ_AP019763.1 See Comparison
NZ_AP018805.1 See Comparison
NZ_AP018800.1 See Comparison
NZ_AP018805.1 See Comparison
NZ_AP019763.1 See Comparison
NZ_AP018800.1 See Comparison
NZ_CP028431.1 See Comparison
NZ_CP028434.1 See Comparison
NC_013366.1 See Comparison
NZ_CP028118.1 See Comparison
NZ_CP027576.1 See Comparison
NZ_CP028118.1 See Comparison
NZ_AP019763.1 See Comparison
NZ_AP018805.1 See Comparison
NZ_AP018800.1 See Comparison
NZ_CP028431.1 See Comparison
NZ_CP028434.1 See Comparison
NC_013366.1 See Comparison
NZ_CP027576.1 See Comparison
NZ_AP019763.1 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


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