Plasmid NZ_CP054347.1
Sequence
Nucleotide Information
| Accession | NZ_CP054347.1 |
|---|---|
| Description | Escherichia coli strain SCU-176 plasmid pSCU-176-2, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 5631 bp |
| GC Content | 0.47 % |
| Created at NCBI | June 12, 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 | 14943547 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | USA,California |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 36.70/-118.76 |
| Address | USA,California |
ECOSYSTEM
| Original Query | Homo sapiens,whole organism,rectal swab from healthy college student |
|---|---|
| Classification | gastrointestinal_system,host_associated,rectal |
| 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 | MbeB family mobilization protein | copy | ||
| PGAG | MobC family plasmid mobilization relaxosome protein | copy | ||
| PGAG | Rop family plasmid primer RNA-binding protein | copy | ||
| PGAG | DMT family transporter | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | MbeD family mobilization/exclusion protein | copy | ||
| MOB-typer | MOBP | copy | ||
| MOB-typer | MOBP | copy | ||
| MOB-typer | rep_cluster_2401 | copy | ||
| MOB-typer | MOBP | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 10 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 |
|---|---|---|---|---|---|---|---|
| Loading... | |||||||
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|
| 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 | CP039864_00003 | rep_cluster_2401 | 2184 | 2372 | minus | 100 | 100 | 4.63e-94 | 350 |
| relaxase | NC_022662_00003 | MOBP | 3 | 983 | minus | 100 | 99 | 0 | 671 |
| relaxase | NC_022662_00003 | MOBP | 5052 | 5630 | minus | 100 | 99 | 7.56e-98 | 331 |
| oriT | NC_019078 | MOBP | 1646 | 1728 | minus | 100 | 100 | 1.3400000000000002e-35 | 154 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 4 of 4 entries
Detected typing markers by plasmidfinder
| NUCCORE ACC | Typing | Identity | Coverage | Start | End | Strand | Organism L1 | Organism L2 |
|---|---|---|---|---|---|---|---|---|
| Loading... | ||||||||
| NUCCORE ACC | Typing | Identity | Coverage | Start | End | Strand | Organism L1 | Organism L2 |