Plasmid NZ_CP065123.1
Sequence
Nucleotide Information
| Accession | NZ_CP065123.1 |
|---|---|
| Description | Salmonella enterica subsp. enterica strain 171 plasmid p171-59k, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 59372 bp |
| GC Content | 0.52 % |
| Created at NCBI | Sept. 3, 2023 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Salmonella enterica (59201) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Pseudomonadota (1224) |
| Class | Gammaproteobacteria (1236) |
| Order | Enterobacterales (91347) |
| Family | Enterobacteriaceae (543) |
| Genus | Salmonella (590) |
| Species | Salmonella_enterica (28901) |
| Strain |
Biosample
Curated Collection Information
| Accession | 16807072 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | Taiwan |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 23.60/120.84 |
| Address | Taiwan |
ECOSYSTEM
| Original Query | Homo sapiens,cell culture,stool |
|---|---|
| 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
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Purples
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Oranges
Greens
100
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B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| amrfinderplus | spvD | copy | ||
| PGAG | RepB family plasmid replication initiator protein | copy | ||
| PGAG | YgiW/YdeI family stress tolerance OB fold protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | pefB | copy | ||
| PGAG | fimbrial protein | copy | ||
| PGAG | pefC | copy | ||
| PGAG | pefD | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 72 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 | 000101__NZ_CP012345_00042 | IncFIB | 1 | 978 | plus | 93.149 | 100 | 0 | 1435 |
| replicon | 000114__CP015527 | IncFII | 14217 | 15098 | minus | 100 | 100 | 0 | 1629 |
| mate-pair-formation | NC_019002_00076 | MPF_F | 17709 | 18038 | minus | 100 | 100 | 1.46e-57 | 197 |
| mate-pair-formation | NC_019094_00090 | MPF_F | 18856 | 20244 | minus | 90.987 | 96 | 0 | 798 |
| mate-pair-formation | NC_019002_00072 | MPF_F | 20247 | 20984 | minus | 100 | 100 | 1.48e-150 | 470 |
| mate-pair-formation | NC_019037_00043 | MPF_F | 21205 | 21537 | minus | 92.793 | 92 | 2.42e-57 | 197 |
| mate-pair-formation | NC_022651_00077 | MPF_F | 21562 | 21870 | minus | 91.262 | 99 | 4.06e-59 | 201 |
| 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 |