Plasmid NZ_LR890716.1
Sequence
Nucleotide Information
| Accession | NZ_LR890716.1 |
|---|---|
| Description | Escherichia coli strain MSB1_6C isolate MSB1_6C plasmid 3, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 36268 bp |
| GC Content | 0.62 % |
| Created at NCBI | Oct. 30, 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 | 4089318 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | Australia |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | -24.78/134.76 |
| Address | Australia |
ECOSYSTEM
| Original Query | Homo sapiens,rectal swab |
|---|---|
| Classification | gastrointestinal_system,host_associated,rectal |
| Host-associated Taxon |
|
DISEASE
| Original Query | healthy |
|---|---|
| DOID/SYMP |
Visualization
Plasmids from same Biosample
Similar Plasmids
based on Mash distance
Plasmid Visualization
Grays
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| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| PGAG | type IV secretion system protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | trbL | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | trbJ | copy | ||
| PGAG | transporter | copy | ||
| PGAG | conjugal transfer protein TrbD | copy | ||
| PGAG | TrbC/VirB2 family protein | copy | ||
| PGAG | helix-turn-helix transcriptional regulator | copy | ||
| PGAG | replication initiator protein A | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 42 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 | 001776__CP020602_00001 | rep_cluster_435 | 8107 | 9348 | plus | 94.605 | 100 | 0 | 1923 |
| relaxase | AP018710_00011 | MOBP | 14748 | 17441 | plus | 96.882 | 100 | 0 | 1765 |
| 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 |