Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C503
  Reference Plasmid   NZ_CP024241.1
  Reference Plasmid Size   104674
  Reference Plasmid GC Content   0.48
  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
M0167540 BJAAEBID_00114 100307 3 Gut 0.10 protein_coding missense_variant MODERATE 2032G>A Ala678Thr
M0167541 BJAAEBID_00050 41323 4 Gut 0.13 protein_coding synonymous_variant LOW 951G>A Glu317Glu
M0167542 BJAAEBID_00050 41329 4 Gut 0.13 protein_coding synonymous_variant LOW 945T>C Ile315Ile
M0167543 BJAAEBID_00050 41357 4 Gut 0.13 protein_coding missense_variant MODERATE 917G>A Arg306His
M0167544 BJAAEBID_00050 41416 3 Gut 0.10 protein_coding synonymous_variant LOW 858C>G Gly286Gly
M0167545 BJAAEBID_00050 41424 3 Gut 0.10 protein_coding missense_variant MODERATE 850C>T Pro284Ser
M0167546 BJAAEBID_00050 41440 4 Gut 0.13 protein_coding synonymous_variant LOW 834T>G Arg278Arg
M0167547 BJAAEBID_00050 41476 4 Gut 0.13 protein_coding synonymous_variant LOW 798C>G Thr266Thr






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
BJAAEBID_00064 VFG036066 Heat-labile toxin (LT) 99.5 5.3e-130 1 218 1.0 0.845 Exotoxin heat-labile enterotoxin A prepeptide (from human) experiment
BJAAEBID_00064 VFG036065 Heat-labile toxin (LT) 100 1.1e-129 1 218 1.0 0.845 Exotoxin heat-labile enterotoxin A prepeptide (from human) prediction
BJAAEBID_00072 VFG042480 Adhesive fimbriae 97.6 3.1e-206 1 372 1.0 0.9973 Adherence CS5 fimbrial minor pilin subunit prediction
BJAAEBID_00073 VFG042479 Adhesive fimbriae 93.3 3.4e-115 1 225 1.0 1.0045 Adherence hypothetical protein prediction
BJAAEBID_00074 VFG042478 Adhesive fimbriae 90.6 3.9e-102 1 203 1.0 1 Adherence hypothetical protein prediction
BJAAEBID_00077 VFG042476 Adhesive fimbriae 94.6 4.8e-122 1 223 1.0 0.9955 Adherence hypothetical protein prediction
BJAAEBID_00078 VFG001433 Adhesive fimbriae 100 1.3e-105 1 203 1.0 1 Adherence CS7 fimbria major subunit CsvA precursor 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
BJAAEBID_00064 PHI:698 CtxA 80.7 2.9e-106 1 218 1.0000 0.8450 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





        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
BJAAEBID_00018 8.B.24.2.1 100 1.4e-53 1 105 0.9906 0.8268 8 Accessory Factors Involved in Transport 8.B Ribosomally synthesized protein/peptide toxins/agonists that target channels and carriers 8.B.24 The Colicin Immunity Protein (ColIP) Functional Family
BJAAEBID_00064 1.C.72.4.1 99.5 3.1e-129 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
BJAAEBID_00105 9.B.40.1.2 85.9 0 1 722 1.0000 0.9691 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.40 The DotA/TraY (DotA/TraY) Family
BJAAEBID_00112 3.A.7.10.1 99 5.1e-242 1 402 1.0000 4.1875 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
BJAAEBID_00113 3.A.7.10.1 99.4 2.8e-207 1 356 1.0000 3.7083 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
BJAAEBID_00114 3.A.7.10.1 99.2 0 1 763 1.0000 7.9479 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family