Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C308
  Reference Plasmid   NC_013378.1
  Reference Plasmid Size   16775
  Reference Plasmid GC Content   0.27
  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
M0084615 GPGDKEDF_00001 5172 4 Skin 0.67 protein_coding upstream_gene_variant MODIFIER -4094T>C None
M0084616 GPGDKEDF_00005 5289 4 Skin 0.67 protein_coding synonymous_variant LOW 321G>C Gly107Gly
M0084617 GPGDKEDF_00005 5436 4 Skin 0.67 protein_coding synonymous_variant LOW 174T>C Cys58Cys
M0084618 GPGDKEDF_00005 5442 4 Skin 0.67 protein_coding synonymous_variant LOW 168T>C Asp56Asp
M0084619 GPGDKEDF_00005 5582 3 Skin 0.50 protein_coding missense_variant MODERATE 28G>T Val10Leu
M0084620 GPGDKEDF_00001 5685 6 Skin 1.00 protein_coding upstream_gene_variant MODIFIER -4607C>T None
M0084621 GPGDKEDF_00006 5801 6 Skin 1.00 protein_coding synonymous_variant LOW 111A>G Leu37Leu
M0084622 GPGDKEDF_00006 5848 6 Skin 1.00 protein_coding missense_variant MODERATE 158T>C Ile53Thr
M0084623 GPGDKEDF_00006 5968 4 Skin 0.67 protein_coding missense_variant MODERATE 278G>A Ser93Asn
M0084624 GPGDKEDF_00006 6092 6 Skin 1.00 protein_coding synonymous_variant LOW 402T>G Gly134Gly
M0084625 GPGDKEDF_00006 6322 4 Skin 0.67 protein_coding missense_variant MODERATE 632C>A Ala211Glu
M0084626 GPGDKEDF_00006 6341 6 Skin 1.00 protein_coding synonymous_variant LOW 651A>G Leu217Leu
M0084627 GPGDKEDF_00006 6350 6 Skin 1.00 protein_coding synonymous_variant LOW 660T>C Tyr220Tyr
M0084628 GPGDKEDF_00006 6354 4 Skin 0.67 protein_coding missense_variant MODERATE 664C>A Gln222Lys
M0084629 GPGDKEDF_00006 6461 4 Skin 0.67 protein_coding synonymous_variant LOW 771G>A Lys257Lys






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