Plasmid NZ_CP046007.1
Sequence
Nucleotide Information
| Accession | NZ_CP046007.1 |
|---|---|
| Description | Escherichia coli strain 1919D62 plasmid p1919D62-1, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 186058 bp |
| GC Content | 0.46 % |
| Created at NCBI | Nov. 20, 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 | 13242790 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | China,Henan |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 34.00/114.00 |
| Address | China,Henan |
ECOSYSTEM
| Original Query | swine,mixed culture,feces |
|---|---|
| Classification | cell_culture,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
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | qnrS1 | copy | ||
| amrfinderplus | tet(X4) | copy | ||
| amrfinderplus | aadA22 | copy | ||
| amrfinderplus | floR | copy | ||
| amrfinderplus | lnu(G) | copy | ||
| amrfinderplus | blaTEM-1 | copy | ||
| rgi | lnuG | copy | ||
| PGAG | intI1 | copy | ||
| PGAG | IS6-like element IS26 family transposase | copy | ||
| PGAG | hypothetical protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 205 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_005211_00030 | MPF_F | 54329 | 55375 | minus | 95.989 | 99 | 0 | 710 |
| mate-pair-formation | NC_019360_00278 | MPF_F | 55523 | 57028 | minus | 90.637 | 100 | 0 | 950 |
| mate-pair-formation | NC_009981_00239 | MPF_T | 74824 | 77502 | minus | 99.888 | 100 | 0 | 1802 |
| mate-pair-formation | NC_019360_00256 | MPF_F | 81643 | 82872 | minus | 94.903 | 100 | 0 | 765 |
| mate-pair-formation | NC_019360_00255 | MPF_F | 82878 | 83660 | minus | 93.487 | 100 | 2.81e-155 | 484 |
| mate-pair-formation | NC_002305_00120 | MPF_F | 140810 | 142891 | minus | 99.856 | 100 | 0 | 1450 |
| mate-pair-formation | NC_002305_00127 | MPF_F | 150862 | 152274 | plus | 100 | 100 | 0 | 966 |
| relaxase | NC_013365_00169 | MOBH | 142894 | 145926 | minus | 99.703 | 100 | 0 | 2022 |
| replicon | AF250878 | IncFIA | 24375 | 24762 | minus | 100 | 100 | 0 | 717 |
| replicon | AF250878 | IncHI1A | 85970 | 86389 | minus | 100 | 100 | 0 | 776 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 10 of 11 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 |