Plasmid CP127738.1
Sequence
Nucleotide Information
| Accession | CP127738.1 |
|---|---|
| Description | Staphylococcus aureus strain C208 plasmid pC208_1, complete sequence |
| Source | insd |
| Topology | circular |
| Length | 20730 bp |
| GC Content | 0.28 % |
| Created at NCBI | June 19, 2023 |
Host Taxonomy
According to NCBI Taxonomy
| Assigned Host | Staphylococcus aureus (1280) |
|---|
Lineage
| Superkingdom | Bacteria (2) |
|---|---|
| Phylum | Bacillota (1239) |
| Class | Bacilli (91061) |
| Order | Bacillales (1385) |
| Family | Staphylococcaceae (90964) |
| Genus | Staphylococcus (1279) |
| Species | Staphylococcus_aureus (1280) |
| Strain |
Biosample
Curated Collection Information
| Accession | 32360855 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | 34.9285S;138.6007E |
|---|---|
| Original Query Type | coordinates |
| Coordinates (Lat/Lon) | -34.93/138.60 |
| Address | Victoria Square, Adelaide, Adelaide City Council, South Australia, 5000, Australia |
ECOSYSTEM
| Original Query | Homo sapiens,Patient Sinus Swab |
|---|---|
| Classification | host_associated,respiratory_system |
| Host-associated Taxon |
|
DISEASE
| Original Query | Chronic Rhinosinusitis without nasal polyps |
|---|---|
| DOID/SYMP |
|
Visualization
Similar Plasmids
based on Mash distance
Identical Plasmids
100% Sequence Identity
-
Sequence
- Accession: CP127776.1
- Description: Staphylococcus aureus strain C80 plasmid pC80_1, complete sequence
- Source: insd
- Created at NCBI: June 19, 2023
-
Host Taxonomy
Assigned Host: Staphylococcus aureus (1280)- Superkingdom : Bacteria (2)
- Phylum : Bacillota (1239)
- Class : Bacilli (91061)
- Order : Bacillales (1385)
- Family : Staphylococcaceae (90964)
- Genus : Staphylococcus (1279)
- Species : Staphylococcus_aureus (1280)
- Strain:
-
Biosample
Accession: 32360835 - GEOGRAPHICAL INFORMATION
- Original Query: 34.9285S;138.6007E
- Original Query Type: coordinates
- Address: Victoria Square, Adelaide, Adelaide City Council, South Australia, 5000, Australia
- Coordinates (Lat/Lon): -34.93/138.60
- ECOSYSTEM
- Original Query: Homo sapiens,Patient Sinus Swab
- Classification: host_associated,respiratory_system
- Host-associated Taxon:
- Homo sapiens (9606)
- DISEASE
- Original Query: Chronic Rhinosinusitis without nasal polyps
- DOID/SYMP:
- Rhinitis (DOID:4483 ) A upper respiratory infectious disease which involves irritation and inflammation of the mucous membrane of the nose due to viruses, bacteria or irritants. The inflammation results in generation of excessive amounts of mucus leading to runny nose, as well as nasal congestion and post-nasal drip.
- Sinusitis (DOID:0050127 ) A paranasal sinus disease involving inflammation of the paranasal sinuses resulting from bacterial, fungal, viral infection, allergic or autoimmune issues. Symptoms can include fever, weakness, fatigue, cough and congestion. There may also be mucus drainage in the back of the throat, called postnasal drip.
Visualization
Plasmid Visualization
Grays
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| rgi | PC1 beta-lactamase (blaZ) | copy | ||
| amrfinderplus | blaI | copy | ||
| amrfinderplus | blaR1 | copy | ||
| amrfinderplus | blaZ | copy | ||
| amrfinderplus | cadD | copy | ||
| PGAG | replication initiator protein A | copy | ||
| PGAG | metalloregulator ArsR/SmtB family transcription factor | copy | ||
| PGAG | type I toxin-antitoxin system Fst family toxin | copy | ||
| PGAG | DUF4062 domain-containing protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 27 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 (%) |
Biosynthetic Gene Clusters
based on ANTISMASH
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 | AF001314 | MOBQ | 1192 | 1340 | plus | 81.333 | 100 | 2.96e-25 | 121 |
| replicon | AP003139 | rep_cluster_2214 | 17591 | 18451 | plus | 100 | 100 | 0 | 1591 |
| replicon | BX571858 | rep_cluster_1733 | 19742 | 20485 | minus | 99.866 | 100 | 0 | 1369 |
| 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 |