Plasmid NZ_CP038377.1
Sequence
Nucleotide Information
| Accession | NZ_CP038377.1 |
|---|---|
| Description | Escherichia coli O157:H7 strain F1273 plasmid pF1273-2, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 7324 bp |
| GC Content | 0.50 % |
| Created at NCBI | May 28, 2020 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Escherichia coli (83334) |
|---|
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 | 11229487 |
|---|
PLASMID INFORMATION
| BIOSAMPLE_pathotype | STEC |
|---|
GEOGRAPHICAL INFORMATION
| Original Query | USA |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 39.78/-100.45 |
| Address | USA |
ECOSYSTEM
| Original Query | beef |
|---|---|
| Classification | host_associated |
| Host-associated Taxon |
|
DISEASE
| Original Query | None |
|---|---|
| DOID/SYMP |
Visualization
Plasmids from same Biosample
Similar Plasmids
based on Mash distance
Plasmid Visualization
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| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| PGAG | cda | copy | ||
| PGAG | colicin immunity domain-containing protein | copy | ||
| PGAG | colicin release lysis protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | Rop family plasmid primer RNA-binding protein | copy | ||
| PGAG | MobC family plasmid mobilization relaxosome protein | copy | ||
| PGAG | MbeB family mobilization protein | copy | ||
| PGAG | MbeD family mobilization/exclusion protein | copy | ||
| PGAG | Exc2 family lipoprotein | copy | ||
| PGAG | hypothetical protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 14 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 |
Biosynthetic Gene Clusters
based on ANTISMASH
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 | CP041342_00001 | rep_cluster_2350 | 2863 | 3410 | minus | 94.011 | 99 | 0 | 830 |
| oriT | NZ_CP016533 | MOBP | 3432 | 3520 | plus | 97.753 | 100 | 1.48e-35 | 154 |
| relaxase | NC_023328_00003 | MOBP | 4176 | 5771 | plus | 98.12 | 100 | 0 | 988 |
| 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 |