Plasmid NZ_CP023653.1
Sequence
Nucleotide Information
| Accession | NZ_CP023653.1 |
|---|---|
| Description | Shigella sonnei strain CFSAN030807 plasmid pCFSAN030807_8, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 2690 bp |
| GC Content | 0.46 % |
| Created at NCBI | Oct. 9, 2019 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Shigella sonnei (624) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Pseudomonadota (1224) |
| Class | Gammaproteobacteria (1236) |
| Order | Enterobacterales (91347) |
| Family | Enterobacteriaceae (543) |
| Genus | Shigella (620) |
| Species | Shigella_sonnei (624) |
| Strain |
Biosample
Curated Collection Information
| Accession | 3612247 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | Somalia |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 8.37/49.08 |
| Address | Somalia |
ECOSYSTEM
| Original Query | Homo sapiens,human |
|---|---|
| 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
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Purples
Reds
Oranges
Greens
100
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B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| PGAG | mobA | copy | ||
| PGAG | putative adhesin | copy | ||
| PGAG | replication initiation protein | copy | ||
| PGAG | Rop family plasmid primer RNA-binding protein | copy | ||
| MOB-typer | MOB_unknown | copy | ||
| MOB-typer | rep_cluster_2350 | copy | ||
| MOB-typer | MOBF | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 7 of 7 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 |
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 |
|---|---|---|---|---|---|---|---|---|---|
| oriT | NC_011407 | MOB_unknown | 2451 | 2690 | plus | 100 | 100 | 2.72e-122 | 444 |
| replicon | CP041342_00001 | rep_cluster_2350 | 1649 | 2176 | minus | 95.472 | 96 | 0 | 843 |
| relaxase | CP019897 | MOBF | 9 | 329 | plus | 97.196 | 100 | 8.16e-62 | 207 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 3 of 3 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 |