Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C599
  Reference Plasmid   NZ_CP035815.1
  Reference Plasmid Size   66338
  Reference Plasmid GC Content   0.51
  Reference Plasmid Mobility Type   conjugative





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
M0169218 OMPHGJGC_00033 24384 3 Gut 0.30 protein_coding synonymous_variant LOW 4777A>C Arg1593Arg
M0169219 OMPHGJGC_00033 27409 3 Gut 0.30 protein_coding synonymous_variant LOW 1752T>C Ala584Ala
M0169220 OMPHGJGC_00033 27514 3 Gut 0.30 protein_coding synonymous_variant LOW 1647T>C Ala549Ala
M0169221 OMPHGJGC_00033 27523 3 Gut 0.30 protein_coding synonymous_variant LOW 1638A>G Ala546Ala
M0169222 OMPHGJGC_00033 27670 3 Gut 0.30 protein_coding missense_variant MODERATE 1491A>G Ile497Met
M0169223 OMPHGJGC_00033 27775 3 Gut 0.30 protein_coding synonymous_variant LOW 1386A>G Glu462Glu
M0169224 OMPHGJGC_00033 28050 3 Gut 0.30 protein_coding missense_variant MODERATE 1111G>A Val371Ile
M0169225 OMPHGJGC_00033 28235 3 Gut 0.30 protein_coding missense_variant MODERATE 926T>C Val309Ala
M0169226 OMPHGJGC_00033 28239 3 Gut 0.30 protein_coding missense_variant MODERATE 922G>T Ala308Ser
M0169227 OMPHGJGC_00033 28417 3 Gut 0.30 protein_coding synonymous_variant LOW 744T>C Asp248Asp






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
OMPHGJGC_00008 VFG002039 Heat-stable toxin (ST) 98.6 9.6e-36 1 72 1.0 1 Exotoxin heat stable enterotoxin I experiment
OMPHGJGC_00013 VFG036066 Heat-labile toxin (LT) 99.1 4.5e-129 1 218 1.0 0.845 Exotoxin heat-labile enterotoxin A prepeptide (from human) experiment
OMPHGJGC_00014 VFG036068 Heat-labile toxin (LT) 96.6 9e-44 1 87 0.9886 0.7016 Exotoxin enterotoxin subunit B (from human) experiment
OMPHGJGC_00008 VFG002039 Heat-stable toxin (ST) 98.6 7.2e-35 1 72 1.0 1 Exotoxin heat stable enterotoxin I prediction
OMPHGJGC_00013 VFG036065 Heat-labile toxin (LT) 99.5 8.9e-129 1 218 1.0 0.845 Exotoxin heat-labile enterotoxin A prepeptide (from human) prediction
OMPHGJGC_00014 VFG036068 Heat-labile toxin (LT) 96.6 6.7e-43 1 87 0.9886 0.7016 Exotoxin enterotoxin subunit B (from human) prediction







        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






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
OMPHGJGC_00003 PHI:3113 stbA 97.9 2.1e-182 1 326 1.0000 1.0000 rodents neonatal meningitis stability protein for the plasmid reduced virulence
OMPHGJGC_00013 PHI:698 CtxA 80.7 3.7e-106 1 218 1.0000 0.8450 primates cholera Cholera toxin (CT) reduced virulence
OMPHGJGC_00014 PHI:699 CtxB 73.6 1.6e-31 1 87 0.9886 0.7016 primates cholera Cholera toxin (CT) 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
OMPHGJGC_00070 QAY42704.1|GH23 100 7.04e-124 1 169 1 1





        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
OMPHGJGC_00013 1.C.72.4.1 99.1 2.7e-128 1 218 1.0000 0.8450 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.72 The Pertussis Toxin (PTX) Family