Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3001
  Reference Plasmid   DSKIN0033-1_bin.10__k141_63191
  Reference Plasmid Size   6444
  Reference Plasmid GC Content   0.66
  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
M0069636 JFEPJNND_00006 6216 3 Skin 1.00 protein_coding synonymous_variant LOW 213A>C Ala71Ala
M0069637 JFEPJNND_00006 6219 3 Skin 1.00 protein_coding synonymous_variant LOW 210T>C Asp70Asp
M0069638 JFEPJNND_00006 6246 3 Skin 1.00 protein_coding synonymous_variant LOW 183T>C Asp61Asp
M0069639 JFEPJNND_00006 6257 3 Skin 1.00 protein_coding missense_variant MODERATE 172T>C Trp58Arg
M0069640 JFEPJNND_00006 6270 3 Skin 1.00 protein_coding synonymous_variant LOW 159G>A Glu53Glu
M0069641 JFEPJNND_00006 6318 3 Skin 1.00 protein_coding synonymous_variant LOW 111T>C Gly37Gly
M0069642 JFEPJNND_00006 6345 3 Skin 1.00 protein_coding synonymous_variant LOW 84C>G Gly28Gly
M0069643 JFEPJNND_00006 6354 3 Skin 1.00 protein_coding synonymous_variant LOW 75G>C Pro25Pro
M0069644 JFEPJNND_00006 6357 3 Skin 1.00 protein_coding synonymous_variant LOW 72C>T Arg24Arg
M0069645 JFEPJNND_00006 6387 3 Skin 1.00 protein_coding synonymous_variant LOW 42G>C Leu14Leu
M0069646 JFEPJNND_00006 6414 3 Skin 1.00 protein_coding synonymous_variant LOW 15T>C Asn5Asn
M0069647 JFEPJNND_00006 6420 3 Skin 1.00 protein_coding synonymous_variant LOW 9G>T Val3Val
M0069648 JFEPJNND_00006 6423 3 Skin 1.00 protein_coding synonymous_variant LOW 6C>T Gly2Gly






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






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






        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
JFEPJNND_00004 2.A.80.1.3 97.4 2.3e-276 1 503 1.0000 2.5533 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.80 The Tricarboxylate Transporter (TTT) Family
JFEPJNND_00005 2.A.80.1.2 90.1 9e-81 1 162 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.80 The Tricarboxylate Transporter (TTT) Family