Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C472
  Reference Plasmid   NZ_CP020057.1
  Reference Plasmid Size   31196
  Reference Plasmid GC Content   0.53
  Reference Plasmid Mobility Type   non-mobilizable





Mutation sites in the plasmid cluster


The table lists mutations identified in the plasmid cluster.
Note: Mutations identified in this plasmid cluster are listed below. Click on a mutation ID to view full details..

mutid gname pos count tissue frequnt biotype consequence impact nucchange aachange
M0166592 HADJEHJF_00004 2401 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -70C>T None
M0166593 HADJEHJF_00004 2439 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -32G>A None
M0166594 HADJEHJF_00004 2596 3 Gut 0.16 protein_coding synonymous_variant LOW 126T>C Thr42Thr
M0166595 HADJEHJF_00004 2827 3 Gut 0.16 protein_coding synonymous_variant LOW 357T>G Arg119Arg
M0166596 HADJEHJF_00004 3138 3 Gut 0.16 protein_coding missense_variant MODERATE 668A>G His223Arg
M0166597 HADJEHJF_00004 3214 3 Gut 0.16 protein_coding synonymous_variant LOW 744A>G Gly248Gly
M0166598 HADJEHJF_00005 3357 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -910A>G None
M0166599 HADJEHJF_00005 3410 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -857C>T None
M0166600 HADJEHJF_00005 3412 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -855C>T None
M0166601 HADJEHJF_00005 3446 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -821T>A None
M0166602 HADJEHJF_00005 3495 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -772T>G None
M0166603 HADJEHJF_00005 3500 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -767G>T None






Analysis of virulence factors contributing to bacterial pathogenicity


This table presents virulence factors identified within the plasmid cluster.
      Note: Virulence factor analysis was performed using VFDB. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known virulence factors are listed.

Gene Name vf_gene_id vf_name identity evalue qstart qend query_coverage subject_coverage vf_category gene_description condition







        Analysis of biocide and heavy metal resistance genes to assess antimicrobial risk and environmental impact


This table presents biocides and heavy metals resistance genes identified within the plasmid cluster.
      Note: Analyzing biocide and heavy metal resistance genes based on BacMet to evaluate bacterial resistance risk and the potential impact of environmental heavy metal contamination. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, E-value < 1e-5) to known biocide and heavy metal resistance genes are listed.

Gene Name compound identity evalue qstart qend query_coverage subject_coverage group






        Analyzing antimicrobial resistance genes to assess bacterial resistance to antibiotics and other antimicrobial agents


This table presents antimicrobial resistance genes identified within the plasmid cluster.
      Note: Antimicrobial resistance was performed using CARD. Genes in plasmid clusters showing strong homology (identity > 70%, coverage > 70%, E-value < 1e-5) to known antimicrobial resistance genes are listed.

Gene Name aro_accession identity evalue qstart qend query_coverage subject_coverage drug_class amr_gene_family resistance_mechanism
HADJEHJF_00010 ARO:3000165 99.7 7.17e-278 1 390 0.9774 0.9198 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
HADJEHJF_00013 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase antibiotic inactivation
HADJEHJF_00015 ARO:3002660 98.5 6.73e-198 1 273 0.8452 0.9820 aminoglycoside antibiotic APH(6) antibiotic inactivation
HADJEHJF_00016 ARO:3002639 99.6 5.98e-202 1 267 1.0000 1.0000 aminoglycoside antibiotic APH(3'') antibiotic inactivation
HADJEHJF_00017 ARO:3000412 100 4.11e-186 1 271 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
HADJEHJF_00021 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase antibiotic inactivation
HADJEHJF_00023 ARO:3002863 100 3.34e-121 1 169 1.0000 1.0000 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement






Analysis of pathogenicity genes to explore pathogen-host interactions


This table presents host pathogen-host interactions within the plasmid cluster.
      Note: Analyzing pathogenicity-related genes using PHI-base to understand pathogen virulence mechanisms and their impact on host interactions. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e-5) to known pathogenicity-related genes are listed.

Gene Name phi_molconn_id host gene_name identity evalue qstart qend query_coverage subject_coverage host_descripton disease_name function phenotype_of_mutant
HADJEHJF_00027 PHI:3113 stbA 98.8 2.5e-183 1 326 1.0000 1.0000 rodents neonatal meningitis stability protein for the plasmid reduced virulence






        Analyzing carbohydrate-active enzyme genes to uncover mechanisms of nutrient degradation


This table presents carbohydrate-active enzyme genes identified within the plasmid cluster.
      Note: Annotation of carbohydrate-active enzyme genes was performed using CAZy to explore mechanisms of nutrient breakdown and utilization. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known CAZyme genes are listed.

Gene Name cazy_id identity evalue qstart qend query_coverage subject_coverage





        Analyzing transport proteins to understand bacterial strategies for substrate uptake and detoxification


This table presents transport proteins within the plasmid cluster.
      Note: Investigation of transport proteins based on TCDB to uncover bacterial mechanisms of substrate transport and environmental detoxification. Genes in plasmid clusters showing strong homology (identity > 70%, subject coverage > 70%, and E-value < 1e−5) to known transport protein entries are listed.

Gene Name tcid identity evalue qstart qend query_coverage subject_coverage class_field class_term subclass subclass_term family family_term
HADJEHJF_00009 2.A.7.3.67 100 2.7e-123 1 232 1.0000 0.7891 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.7 The Drug/Metabolite Transporter (DMT) Superfamily
HADJEHJF_00010 2.A.1.2.4 100 2.4e-223 1 399 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)