Plasmid CP058042.1
Sequence
Nucleotide Information
| Accession | CP058042.1 |
|---|---|
| Description | Escherichia coli strain RHB03-C06 plasmid pRHB03-C06_3, complete sequence |
| Source | insd |
| Topology | circular |
| Length | 44007 bp |
| GC Content | 0.49 % |
| Created at NCBI | Aug. 7, 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 | 15147976 |
|---|
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
Identical Plasmids
100% Sequence Identity
-
Sequence
- Accession: CP057004.1
- Description: Escherichia coli strain RHB41-C03 plasmid pRHB41-C03_3, complete sequence
- Source: insd
- Created at NCBI: July 28, 2020
-
Host Taxonomy
Assigned Host: Escherichia coli (562)- Superkingdom : Bacteria (2)
- Phylum : Pseudomonadota (1224)
- Class : Gammaproteobacteria (1236)
- Order : Enterobacterales (91347)
- Family : Enterobacteriaceae (543)
- Genus : Escherichia (561)
- Species : Escherichia_coli (562)
- Strain:
-
Biosample
Accession: 15148421 - GEOGRAPHICAL INFORMATION
- Original Query: United Kingdom
- Original Query Type: name
- Address: United Kingdom
- Coordinates (Lat/Lon): 54.70/-3.28
- ECOSYSTEM
- Original Query: culture,Pooled pig faecal samples collected from floor of farm
- Classification: cell_culture,fecal,gastrointestinal_system,host_associated
- Host-associated Taxon:
- Sus scrofa (9823)
Visualization
Plasmid Visualization
Grays
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | blaCTX-M-32 | copy | ||
| amrfinderplus | aadA1 | copy | ||
| amrfinderplus | aadA2 | copy | ||
| rgi | mef(B) | copy | ||
| amrfinderplus | dfrA12 | copy | ||
| amrfinderplus | cmlA1 | copy | ||
| rgi | aadA2 | copy | ||
| rgi | aadA | copy | ||
| amrfinderplus | qnrB19 | copy | ||
| amrfinderplus | qacL | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 49 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 |
Antimicrobial Resistance
based on NCBIAMRFinder and CARD
| 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)
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|
| Loading... | ||||||||||
| 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 | 000215__KC853434_00019 | IncX1 | 26423 | 26869 | plus | 98.21 | 100 | 0 | 782 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 1 of 1 entry
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 |