Plasmid NC_017654.1

Sequence

Nucleotide Information

Accession	NC_017654.1
Description	Escherichia coli O55:H7 str. RM12579 plasmid p12579_3, complete sequence
Source	refseq
Topology	circular
Length	12068 bp
GC Content	0.49 %
Created at NCBI	May 11, 2012

Host Taxonomy

According to NCBI Taxonomy

Assigned Host	Escherichia coli O55:H7 str. RM12579 (1048689)

Lineage

Superkingdom	Bacteria (2)
Phylum	Pseudomonadota (1224)
Class	Gammaproteobacteria (1236)
Order	Enterobacterales (91347)
Family	Enterobacteriaceae (543)
Genus	Escherichia (561)
Species	Escherichia_coli (562)
Strain	Escherichia_coli_O55:H7_str._RM12579 (1048689)

Assembly

Genome Data Information

Accession	GCF_000245515.1
Assembly Coverage	None

Biosample

Curated Collection Information

Accession	2604278

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,urine from child < 5 years old
Classification	host_associated,urinary_system
Host-associated Taxon	Homo sapiens (9606)

DISEASE

Original Query	None
DOID/SYMP

Visualization

Plasmids from same Biosample

Similar Plasmids

based on Mash distance

NC_017654.1	See Comparison

Plasmid Visualization

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Purples

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Greens

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Search:

Source	Element Name	Display	Sequence	Favorite

amrfinderplus	blaTEM-1		copy
PGAG	IS4 family transposase		copy
PGAG	broad-spectrum class A beta-lactamase TEM-1		copy
PGAG	recombinase family protein		copy
PGAG	Tn3-like element Tn3 family transposase		copy
PGAG	hypothetical protein		copy
PGAG	hypothetical protein		copy
PGAG	Rop family plasmid primer RNA-binding protein		copy
PGAG	plasmid mobilization relaxosome protein MobC		copy
PGAG	MbeB family mobilization protein		copy
Source	Element Name	Display	Sequence	Favorite

Showing 1 to 10 of 15 entries

Annotations

based on the NCBI Prokaryotic Genome Annotation Pipeline (PGAP)

Search:

NUCCORE ACC	Gene	Locus Tag	Product	Protein id	Codon Start	Translation Table	GO process

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NUCCORE ACC	Gene	Locus Tag	Product	Protein id	Codon Start	Translation Table	GO process

Antimicrobial Resistance

based on NCBIAMRFinder and CARD

Search:

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 (%)

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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)

Search:

NUCCORE ACC	Replicon Type	Relaxase Type	MPF Type	OriT Type	Predicted Mobility	Primary Cluster ID	Secondary Cluster ID	Observed Host Range Ncbi Name	Mash Neighbor Distance	Reported Host Range Lit Rank

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NUCCORE ACC	Replicon Type	Relaxase Type	MPF Type	OriT Type	Predicted Mobility	Primary Cluster ID	Secondary Cluster ID	Observed Host Range Ncbi Name	Mash Neighbor Distance	Reported Host Range Lit Rank

BLAST results of detected typing markers by MOB-type

Search:

biomarker	MOB-suite ID	Element	Start	End	Strand	Identity	Coverage	Evalue	Bitscore

replicon	CP045830_00002	rep_cluster_2392	7889	8111	plus	92.825	87	1.42e-85	322
oriT	CP018722	MOBP	8552	8636	plus	100	100	1.07e-36	158
relaxase	NC_019076_00002	MOBP	9297	10847	plus	91.794	100	0	910
biomarker	MOB-suite ID	Element	Start	End	Strand	Identity	Coverage	Evalue	Bitscore

Showing 1 to 3 of 3 entries

Detected typing markers by plasmidfinder

Search:

NUCCORE ACC	Typing	Identity	Coverage	Start	End	Strand	Organism L1	Organism L2

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NUCCORE ACC	Typing	Identity	Coverage	Start	End	Strand	Organism L1	Organism L2