Plasmid NZ_AP027624.1
Sequence
Nucleotide Information
| Accession | NZ_AP027624.1 |
|---|---|
| Description | Escherichia coli strain PSJ-12 plasmid pPSJ-12_2, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 59707 bp |
| GC Content | 0.42 % |
| Created at NCBI | April 4, 2024 |
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 | 38124474 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | Ecuador,Puyo |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | -1.49/-78.00 |
| Address | Ecuador,Puyo |
ECOSYSTEM
| Original Query | Homo sapiens,whole organism,feces |
|---|---|
| Classification | 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
Plasmid Visualization
Grays
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Purples
Reds
Oranges
Greens
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B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | mcr-1.1 | copy | ||
| PGAG | shufflon system plasmid conjugative transfer pilus tip adhesin PilV | copy | ||
| PGAG | A24 family peptidase | copy | ||
| PGAG | lytic transglycosylase domain-containing protein | copy | ||
| PGAG | type 4 pilus major pilin | copy | ||
| PGAG | type II secretion system F family protein | copy | ||
| PGAG | ATPase, T2SS/T4P/T4SS family | copy | ||
| PGAG | pilP | copy | ||
| PGAG | pilO2 | copy | ||
| PGAG | PilN family type IVB pilus formation outer membrane protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 78 entries
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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 |
|---|---|---|---|---|---|---|---|---|---|
| mate-pair-formation | NC_020270_00058 | MPF_T | 9567 | 11522 | minus | 98.16 | 100 | 0 | 1216 |
| mate-pair-formation | NC_019039_00051 | MPF_T | 13744 | 14511 | minus | 99.609 | 100 | 2.91e-172 | 533 |
| mate-pair-formation | NC_019039_00052 | MPF_T | 14511 | 15242 | minus | 99.59 | 100 | 4.55e-147 | 460 |
| mate-pair-formation | NC_020270_00063 | MPF_T | 15411 | 17765 | minus | 99.49 | 100 | 0 | 1563 |
| mate-pair-formation | NC_019039_00065 | MPF_T | 24845 | 25837 | minus | 87.009 | 100 | 2.57e-156 | 491 |
| replicon | AP017614 | IncI2 | 31077 | 32093 | plus | 99.803 | 100 | 0 | 1868 |
| relaxase | MN232180_00018 | MOBP | 44585 | 48895 | plus | 98.089 | 100 | 0 | 2785 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 7 of 7 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 |