Plasmid NZ_CP023829.1
Sequence
Nucleotide Information
| Accession | NZ_CP023829.1 |
|---|---|
| Description | Escherichia coli strain 4/4 plasmid p4_4.3, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 33067 bp |
| GC Content | 0.41 % |
| Created at NCBI | Dec. 5, 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 | 7760938 |
|---|
PLASMID INFORMATION
GEOGRAPHICAL INFORMATION
| Original Query | Sweden |
|---|---|
| Original Query Type | name |
| Coordinates (Lat/Lon) | 59.67/14.52 |
| Address | Sweden |
ECOSYSTEM
| Original Query | Homo sapiens,Bacterial isolate,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
Identical Plasmids
100% Sequence Identity
-
Sequence
- Accession: NZ_CP023836.1
- Description: Escherichia coli strain 4/2-1 plasmid p4_2_1.2, complete sequence
- Source: refseq
- Created at NCBI: Dec. 5, 2018
-
Host Taxonomy
Assigned Host: Escherichia coli (562)- Superkingdom : Bacteria (2)
- Phylum : Pseudomonadota (1224)
- Class : Gammaproteobacteria (1236)
- Order : Enterobacterales (91347)
- Family : Enterobacteriaceae (543)
- Genus : Escherichia (561)
- Species : Escherichia_coli (562)
- Strain:
-
Biosample
Accession: 7760933 - GEOGRAPHICAL INFORMATION
- Original Query: Sweden
- Original Query Type: name
- Address: Sweden
- Coordinates (Lat/Lon): 59.67/14.52
- ECOSYSTEM
- Original Query: Homo sapiens,Bacterial isolate,feces
- Classification: cell_culture,fecal,gastrointestinal_system,host_associated
- Host-associated Taxon:
- Homo sapiens (9606)
Visualization
-
Sequence
- Accession: NZ_CP023846.1
- Description: Escherichia coli strain 4/1-1 plasmid p4_1_1.2, complete sequence
- Source: refseq
- Created at NCBI: Dec. 5, 2018
-
Host Taxonomy
Assigned Host: Escherichia coli (562)- Superkingdom : Bacteria (2)
- Phylum : Pseudomonadota (1224)
- Class : Gammaproteobacteria (1236)
- Order : Enterobacterales (91347)
- Family : Enterobacteriaceae (543)
- Genus : Escherichia (561)
- Species : Escherichia_coli (562)
- Strain:
-
Biosample
Accession: 7760931 - GEOGRAPHICAL INFORMATION
- Original Query: Sweden
- Original Query Type: name
- Address: Sweden
- Coordinates (Lat/Lon): 59.67/14.52
- ECOSYSTEM
- Original Query: Homo sapiens,Bacterial isolate,feces
- Classification: cell_culture,fecal,gastrointestinal_system,host_associated
- Host-associated Taxon:
- Homo sapiens (9606)
Visualization
Plasmid Visualization
Grays
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| PGAG | hypothetical protein | copy | ||
| PGAG | DUF6012 family protein | copy | ||
| PGAG | type IA DNA topoisomerase | copy | ||
| PGAG | hha | copy | ||
| PGAG | H-NS family nucleoid-associated regulatory protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | tyrosine-type recombinase/integrase | copy | ||
| PGAG | division plane positioning ATPase MipZ | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 49 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 |
|---|---|---|---|---|---|---|---|---|---|---|
| Loading... | ||||||||||
| 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_021079_00038 | MPF_T | 23318 | 24388 | plus | 100 | 100 | 7.1e-173 | 541 |
| mate-pair-formation | NC_013718_00045 | MPF_T | 24927 | 25610 | plus | 99.561 | 100 | 4.14e-137 | 431 |
| mate-pair-formation | NC_013718_00044 | MPF_T | 25610 | 26515 | plus | 99.338 | 100 | 0 | 590 |
| mate-pair-formation | NC_013718_00041 | MPF_T | 28637 | 30496 | plus | 98.871 | 100 | 0 | 1169 |
| replicon | 000224__NC_022105_00002 | IncX4 | 8826 | 9698 | minus | 99.771 | 100 | 0 | 1602 |
| relaxase | NC_013718_00057 | MOBP | 16684 | 17910 | plus | 99.022 | 100 | 0 | 839 |
| biomarker | MOB-suite ID | Element | Start | End | Strand | Identity | Coverage | Evalue | Bitscore |
Showing 1 to 6 of 6 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 |