Plasmid NZ_CP056964.1
Sequence
Nucleotide Information
| Accession | NZ_CP056964.1 |
|---|---|
| Description | Escherichia fergusonii strain RHB41-C20 plasmid pRHB41-C20_4, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 7424 bp |
| GC Content | 0.49 % |
| Created at NCBI | Aug. 4, 2020 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Escherichia fergusonii (564) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Pseudomonadota (1224) |
| Class | Gammaproteobacteria (1236) |
| Order | Enterobacterales (91347) |
| Family | Enterobacteriaceae (543) |
| Genus | Escherichia (561) |
| Species | Escherichia_fergusonii (564) |
| Strain |
Biosample
Curated Collection Information
| Accession | 15148429 |
|---|
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 | Rop family plasmid primer RNA-binding protein | copy | ||
| PGAG | replication initiation protein | copy | ||
| PGAG | colicin E1 immunity protein | copy | ||
| PGAG | IS1-like element IS1B family transposase | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | Exc2 family lipoprotein | copy | ||
| PGAG | MbeD family mobilization/exclusion protein | copy | ||
| PGAG | MbeB family mobilization protein | copy | ||
| PGAG | MobC family plasmid mobilization relaxosome protein | copy | ||
| MOB-typer | rep_cluster_2350 | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 12 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 |
|---|---|---|---|---|---|---|---|---|---|
| replicon | CP035723_00002 | rep_cluster_2350 | 219 | 778 | plus | 95.544 | 100 | 0 | 894 |
| relaxase | NC_019076_00002 | MOBP | 5342 | 6892 | minus | 98.473 | 100 | 0 | 975 |
| oriT | MF083142 | MOBP | 121 | 209 | minus | 100 | 100 | 6.86e-39 | 165 |
| 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 |