Plasmid NZ_CP028625.1
Sequence
Nucleotide Information
| Accession | NZ_CP028625.1 |
|---|---|
| Description | Escherichia coli strain 138 plasmid pTA138, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 94493 bp |
| GC Content | 0.48 % |
| Created at NCBI | May 8, 2019 |
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 | 8773045 |
|---|
PLASMID INFORMATION
| BIOSAMPLE_pathotype | Escherichia coli - STEC |
|---|
GEOGRAPHICAL INFORMATION
| Original Query | None |
|---|---|
| Original Query Type | None |
| Coordinates (Lat/Lon) | |
| Address | None |
ECOSYSTEM
| Original Query | cattle |
|---|---|
| Classification | host_associated |
| Host-associated Taxon |
|
DISEASE
| Original Query | None |
|---|---|
| DOID/SYMP |
Visualization
Plasmids from same Biosample
Similar Plasmids
based on Mash distance
Identical Plasmids
100% Sequence Identity
-
Sequence
- Accession: NZ_CP028661.1
- Description: Escherichia coli strain 120 plasmid pTA120, complete sequence
- Source: refseq
- Created at NCBI: May 8, 2019
-
Host Taxonomy
Assigned Host: Escherichia coli (562)- Superkingdom : Bacteria (2)
- Phylum : Pseudomonadota (1224)
- Class : Gammaproteobacteria (1236)
- Order : Enterobacterales (91347)
- Family : Enterobacteriaceae (543)
- Genus : Escherichia (561)
- Species : Escherichia_coli (562)
- Strain:
-
Biosample
Accession: 8773032 - GEOGRAPHICAL INFORMATION
- Original Query: None
- Original Query Type: None
- Address: None
- Coordinates (Lat/Lon):
- ECOSYSTEM
- Original Query: cattle
- Classification: host_associated
- Host-associated Taxon:
- Bos taurus (9913)
Visualization
Plasmid Visualization
Grays
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | toxB | copy | ||
| amrfinderplus | katP | copy | ||
| amrfinderplus | ehxA | copy | ||
| amrfinderplus | espP | copy | ||
| PGAG | repA | copy | ||
| PGAG | ribbon-helix-helix domain-containing protein | copy | ||
| PGAG | type II toxin-antitoxin system RelE/ParE family toxin | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | cytochrome b562 | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 85 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 |
|---|---|---|---|---|---|---|---|---|---|
| replicon | 000136__AP014877_00014 | IncFIA | 13 | 870 | plus | 96.27 | 100 | 0 | 1408 |
| replicon | 000095__NZ_CP014273_00094 | IncFIB | 45522 | 46499 | minus | 97.955 | 100 | 0 | 1696 |
| replicon | KF954760 | IncFII | 52186 | 52453 | plus | 90.299 | 91 | 2.1299999999999998e-94 | 351 |
| replicon | AY458016 | IncFIC | 94250 | 94493 | minus | 95.935 | 94 | 2.35e-108 | 398 |
| 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 |
|---|---|---|---|---|---|---|---|---|
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| NUCCORE ACC | Typing | Identity | Coverage | Start | End | Strand | Organism L1 | Organism L2 |