Plasmid NZ_CP116140.1
Sequence
Nucleotide Information
| Accession | NZ_CP116140.1 |
|---|---|
| Description | Escherichia coli strain DETEC-P649 plasmid pDETEC28, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 4593 bp |
| GC Content | 0.50 % |
| 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 | 31988469 |
|---|
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 oral swab |
|---|---|
| Classification | disease,host_associated,oral |
| Host-associated Taxon |
|
DISEASE
| Original Query | None |
|---|---|
| DOID/SYMP |
|
Visualization
Plasmids from same Biosample
Similar Plasmids
based on Mash distance
Plasmid Visualization
Grays
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Purples
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Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| PGAG | MbeB family mobilization protein | copy | ||
| PGAG | MbeD family mobilization/exclusion protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | Rop family plasmid primer RNA-binding protein | copy | ||
| PGAG | MobC family plasmid mobilization relaxosome protein | copy | ||
| MOB-typer | MOBP | copy | ||
| MOB-typer | rep_cluster_2350 | copy | ||
| MOB-typer | MOBP | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 9 of 9 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 | NZ_CP011065 | MOBP | 2640 | 2725 | plus | 100 | 100 | 3.03e-37 | 159 |
| replicon | CP035723_00002 | rep_cluster_2350 | 2071 | 2630 | minus | 93.761 | 100 | 0 | 839 |
| relaxase | NC_014003_00004 | MOBP | 3380 | 4588 | plus | 100 | 98 | 0 | 793 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 3 of 3 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 |