Plasmid NZ_CP080164.1
Sequence
Nucleotide Information
| Accession | NZ_CP080164.1 |
|---|---|
| Description | Escherichia coli strain PK8275 plasmid pPK8275-tetX, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 119081 bp |
| GC Content | 0.53 % |
| Created at NCBI | Aug. 2, 2021 |
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 | 20353479 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | 31.50N;73.02E |
|---|---|
| Original Query Type | coordinates |
| Coordinates (Lat/Lon) | 31.50/73.02 |
| Address | Faisalabad Saddar Tehsil, Faisalabad District, Punjab, Pakistan |
ECOSYSTEM
| Original Query | chicken |
|---|---|
| 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
Grays
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | blaTEM-215 | copy | ||
| amrfinderplus | floR | copy | ||
| amrfinderplus | dfrA12 | copy | ||
| amrfinderplus | fosA4 | copy | ||
| rgi | Mrx | copy | ||
| rgi | mphA | copy | ||
| amrfinderplus | tet(X4) | copy | ||
| amrfinderplus | mph(A) | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 146 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 |
|---|---|---|---|---|---|---|---|---|---|
| relaxase | NC_017627_00068 | MOBF | 34215 | 39482 | plus | 97.95 | 100 | 0 | 3360 |
| mate-pair-formation | NC_022651_00077 | MPF_F | 10431 | 10739 | plus | 100 | 99 | 4.03e-63 | 213 |
| mate-pair-formation | NC_010409_00124 | MPF_F | 11317 | 12042 | plus | 97.107 | 100 | 8.23e-153 | 476 |
| mate-pair-formation | NC_019094_00090 | MPF_F | 12045 | 13439 | plus | 95.923 | 96 | 0 | 813 |
| mate-pair-formation | NC_017639_00094 | MPF_F | 14600 | 15112 | plus | 96.491 | 100 | 6.73e-96 | 310 |
| mate-pair-formation | NC_013437_00116 | MPF_T | 15631 | 18252 | plus | 90.847 | 99 | 0 | 1641 |
| mate-pair-formation | NC_007675_00027 | MPF_F | 18638 | 19267 | plus | 98.571 | 97 | 7.93e-135 | 424 |
| mate-pair-formation | NC_017639_00100 | MPF_F | 19267 | 20223 | plus | 99.06 | 91 | 0 | 607 |
| mate-pair-formation | NC_018966_00040 | MPF_F | 21307 | 21891 | plus | 97.436 | 92 | 3.64e-124 | 393 |
| mate-pair-formation | NC_010488_00021 | MPF_F | 21891 | 23696 | plus | 99.834 | 100 | 0 | 1187 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 10 of 14 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 |