Plasmid NZ_CP028681.1
Sequence
Nucleotide Information
| Accession | NZ_CP028681.1 |
|---|---|
| Description | Escherichia coli strain 113 plasmid pTA113-2, complete sequence |
| Source | refseq |
| Topology | circular |
| Length | 6078 bp |
| GC Content | 0.46 % |
| Created at NCBI | May 9, 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 | 8773025 |
|---|
PLASMID INFORMATION
| BIOSAMPLE_pathotype | Escherichia coli - STEC |
|---|
GEOGRAPHICAL INFORMATION
| Original Query | None |
|---|---|
| Original Query Type | None |
| Coordinates (Lat/Lon) | |
| Address | None |
ECOSYSTEM
| Original Query | cattle |
|---|---|
| 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
Blues
Purples
Reds
Oranges
Greens
100
Hex
R
G
B
| Source | Element Name | Display | Sequence | Favorite |
|---|---|---|---|---|
| PGAG | MbeD family mobilization/exclusion protein | copy | ||
| PGAG | MbeB family mobilization protein | copy | ||
| PGAG | MobC family plasmid mobilization relaxosome protein | copy | ||
| PGAG | Rop family plasmid primer RNA-binding protein | copy | ||
| PGAG | replication initiation protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | type III toxin-antitoxin system ToxN/AbiQ family toxin | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| PGAG | hypothetical protein | copy | ||
| Source | Element Name | Display | Sequence | Favorite |
Showing 1 to 10 of 13 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 |
|---|---|---|---|---|---|---|---|
| Loading... | |||||||
| 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 |
|---|---|---|---|---|---|---|---|---|---|
| oriT | KR905387 | MOBP | 1962 | 2047 | minus | 98.837 | 100 | 1.41e-35 | 154 |
| replicon | CP000974_00005 | rep_cluster_2358 | 2346 | 2864 | plus | 89.792 | 99 | 0 | 662 |
| relaxase | NC_019076_00002 | MOBP | 2 | 1315 | minus | 93.836 | 99 | 0 | 812 |
| 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 |
|---|---|---|---|---|---|---|---|---|
| Loading... | ||||||||
| NUCCORE ACC | Typing | Identity | Coverage | Start | End | Strand | Organism L1 | Organism L2 |