Plasmid NZ_CP026577.2
Sequence
Nucleotide Information
| Accession | NZ_CP026577.2 |
|---|---|
| Description | Escherichia coli strain WCHEC005237 plasmid pNDM5_005237, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 46161 bp |
| GC Content | 0.47 % |
| Created at NCBI | March 1, 2018 |
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 | 6209723 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | China,Sichuan,Chengdu |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 30.68/104.06 |
| Address | China,Sichuan,Chengdu |
ECOSYSTEM
| Original Query | Homo sapiens,Culture,Rectal swab |
|---|---|
| Classification | cell_culture,gastrointestinal_system,host_associated,rectal |
| 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 | blaNDM-5 | copy | ||
| amrfinderplus | ble | copy | ||
| PGAG | mobP1 | copy | ||
| PGAG | transcription termination/antitermination NusG family protein | copy | ||
| PGAG | lytic transglycosylase domain-containing protein | copy | ||
| PGAG | TrbC/VirB2 family protein | copy | ||
| PGAG | VirB3 family type IV secretion system protein | copy | ||
| PGAG | type IV secretion system protein | copy | ||
| PGAG | EexN family lipoprotein | copy | ||
| PGAG | type IV secretion system protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 64 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 |
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 | 000221__NC_025130_00012 | IncX3 | 38966 | 39838 | minus | 100 | 100 | 0 | 1613 |
| relaxase | NC_020552_00059 | MOBP | 45077 | 46159 | plus | 100 | 94 | 0 | 708 |
| mate-pair-formation | NC_023277_00163 | MPF_T | 2714 | 4864 | plus | 90.098 | 100 | 0 | 1335 |
| mate-pair-formation | NC_019157_00029 | MPF_T | 5926 | 6978 | plus | 100 | 100 | 0 | 645 |
| mate-pair-formation | NC_019157_00030 | MPF_T | 7176 | 7901 | plus | 100 | 100 | 1.21e-145 | 456 |
| mate-pair-formation | NC_019083_00030 | MPF_T | 7910 | 8836 | plus | 98.706 | 100 | 0 | 630 |
| mate-pair-formation | NC_017624_00009 | MPF_T | 11283 | 13079 | plus | 95.159 | 98 | 0 | 1123 |
| 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 |