Plasmid NZ_CP116151.1
Sequence
Nucleotide Information
| Accession | NZ_CP116151.1 |
|---|---|
| Description | Escherichia coli strain DETEC-P622 plasmid pDETEC59, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 1552 bp |
| GC Content | 0.52 % |
| Created at NCBI | Jan. 25, 2023 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Escherichia coli (562) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Pseudomonadota (1224) |
| Class | Gammaproteobacteria (1236) |
| Order | Enterobacterales (91347) |
| Family | Enterobacteriaceae (543) |
| Genus | Escherichia (561) |
| Species | Escherichia_coli (562) |
| Strain |
Biosample
Curated Collection Information
| Accession | 31988467 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | China,Guangzhou |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 23.13/113.26 |
| Address | China,Guangzhou |
ECOSYSTEM
| Original Query | whole organism,ICU patient rectal swab |
|---|---|
| Classification | disease,gastrointestinal_system,host_associated,rectal |
| Host-associated Taxon |
|
DISEASE
| Original Query | None |
|---|---|
| DOID/SYMP |
|
Visualization
Plasmids from same Biosample
Similar Plasmids
based on Mash distance
Plasmid Visualization
Grays
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| PGAG | helix-turn-helix domain-containing protein | copy | ||
| MOB-typer | MOB_unknown | copy | ||
| MOB-typer | Col(MG828) | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 3 of 3 entries
Annotations
based on the NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
| 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 |
Typing
based on MOB-Typer and Plasmid Multilocus Sequencing Typing (PMLST)
| 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
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
|---|---|---|---|---|---|---|---|---|---|
| oriT | CP018359 | MOB_unknown | 1222 | 1331 | plus | 100 | 100 | 1.95e-50 | 204 |
| replicon | NC_008486 | Col(MG828) | 176 | 437 | plus | 93.511 | 100 | 3.95e-106 | 390 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 2 of 2 entries
Detected typing markers by plasmidfinder
| 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 |