Plasmid NZ_CP117320.1
Sequence
Nucleotide Information
| Accession | NZ_CP117320.1 |
|---|---|
| Description | Salmonella enterica subsp. enterica serovar Derby strain RM002 plasmid pRM002_3, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 6045 bp |
| GC Content | 0.54 % |
| Created at NCBI | March 3, 2023 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Salmonella enterica (28144) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Pseudomonadota (1224) |
| Class | Gammaproteobacteria (1236) |
| Order | Enterobacterales (91347) |
| Family | Enterobacteriaceae (543) |
| Genus | Salmonella (590) |
| Species | Salmonella_enterica (28901) |
| Strain |
Biosample
Curated Collection Information
| Accession | 32950807 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | USA,midwestern |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 33.87/-98.52 |
| Address | USA,midwestern |
ECOSYSTEM
| Original Query | Bos taurus,Water from tanks in pens |
|---|---|
| Classification | aquatic,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
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Oranges
Greens
100
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B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | sul2 | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | IS91-like element ISVsa3 family transposase | copy | ||
| MOB-typer | rep_cluster_2335 | copy | ||
| MOB-typer | MOBP | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 7 of 7 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 |
|---|---|---|---|---|---|---|---|---|---|---|
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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 | KU302809_00001 | rep_cluster_2335 | 1326 | 1932 | minus | 89.593 | 99 | 0 | 765 |
| oriT | AJ001708 | MOBP | 1855 | 2029 | plus | 99.429 | 100 | 1.19e-84 | 318 |
| 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 |