Plasmid CP057728.1
Sequence
Nucleotide Information
| Accession | CP057728.1 |
|---|---|
| Description | Escherichia coli strain RHB16-C19 plasmid pRHB16-C19_4, complete sequence |
| Source | insd |
| Topology | circular |
| Length | 5128 bp |
| GC Content | 0.49 % |
| Created at NCBI | July 29, 2020 |
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 | 15148139 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | United Kingdom |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 54.70/-3.28 |
| Address | United Kingdom |
ECOSYSTEM
| Original Query | culture,Pooled pig faecal samples collected from floor of farm |
|---|---|
| Classification | cell_culture,fecal,gastrointestinal_system,host_associated |
| 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 | replication initiation protein | copy | ||
| PGAG | Rop family plasmid primer RNA-binding protein | copy | ||
| PGAG | MobC family plasmid mobilization relaxosome protein | copy | ||
| PGAG | MbeB family mobilization protein | copy | ||
| PGAG | mbeD | copy | ||
| PGAG | DUF2158 domain-containing protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | ParA family protein | copy | ||
| MOB-typer | MOBP | copy | ||
| MOB-typer | rep_cluster_2335 | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 11 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 |
|---|---|---|---|---|---|---|---|---|---|
| relaxase | NC_019076_00002 | MOBP | 1501 | 3051 | plus | 91.412 | 100 | 0 | 904 |
| replicon | KU302809_00001 | rep_cluster_2335 | 153 | 740 | minus | 91.723 | 97 | 0 | 813 |
| oriT | CP008720 | MOBP | 663 | 837 | plus | 92.571 | 100 | 1.23e-64 | 252 |
| 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 |