Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C916
  Reference Plasmid   NZ_CP077339.1
  Reference Plasmid Size   55306
  Reference Plasmid GC Content   0.39
  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
M0104756 PKGCIAEN_00016 12063 5 Skin 0.33 protein_coding synonymous_variant LOW 435C>T Asn145Asn
M0104757 PKGCIAEN_00017 13289 4 Skin 0.27 protein_coding missense_variant MODERATE 686T>A Val229Asp
M0104758 PKGCIAEN_00004 8460 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4785A>G None
M0104759 PKGCIAEN_00011 8531 3 Skin 0.20 protein_coding missense_variant MODERATE 14G>T Gly5Val
M0104760 PKGCIAEN_00011 8996 4 Skin 0.27 protein_coding missense_variant MODERATE 479T>A Leu160Gln
M0104761 PKGCIAEN_00007 9026 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -3017C>T None
M0104762 PKGCIAEN_00012 9200 3 Skin 0.20 protein_coding synonymous_variant LOW 147C>T Ala49Ala
M0104763 PKGCIAEN_00014 9867 3 Skin 0.20 protein_coding missense_variant MODERATE 7G>A Glu3Lys
M0104764 PKGCIAEN_00014 10208 4 Skin 0.27 protein_coding synonymous_variant LOW 348C>T Ile116Ile
M0104765 PKGCIAEN_00014 10256 4 Skin 0.27 protein_coding synonymous_variant LOW 396G>C Ala132Ala
M0104766 PKGCIAEN_00003 7534 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -4421A>G None
M0104767 PKGCIAEN_00003 7539 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -4426C>A None
M0104768 PKGCIAEN_00015 11145 3 Skin 0.20 protein_coding synonymous_variant LOW 240C>A Pro80Pro






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
PKGCIAEN_00018 Mercury (Hg) 90.9 5.2e-56 8 128 0.9453 1.0000 experiment
PKGCIAEN_00019 Mercury (Hg) 91.1 4.6e-290 1 561 1.0000 1.0000 experiment
PKGCIAEN_00020 Mercury (Hg) 80.1 1.6e-61 1 141 1.0000 1.0000 experiment
PKGCIAEN_00021 Mercury (Hg) 88.1 2.7e-72 1 151 1.0000 1.0000 experiment
PKGCIAEN_00007 Chromium (Cr) 80.3 5.4e-210 2 447 0.9933 0.9867 prediction
PKGCIAEN_00008 Chromium (Cr), Methyl Viologen [class: Paraquat], Menadione [class: Naphthoquinone] 95.8 3.7e-170 1 308 1.0000 1.0000 prediction
PKGCIAEN_00014 Arsenic (As) 94.2 2.5e-178 1 346 1.0000 1.0000 prediction
PKGCIAEN_00015 Arsenic (As) 75.5 1e-98 3 234 0.9957 0.9708 prediction
PKGCIAEN_00017 Arsenic (As) 96.3 8.7e-217 1 379 0.9844 0.9793 prediction
PKGCIAEN_00018 Mercury (Hg) 99.2 3.2e-59 8 128 0.9453 1.0000 prediction
PKGCIAEN_00019 Mercury (Hg), Phenylmercury Acetate [class: Organo-mercury] 99.8 0 1 561 1.0000 1.0000 prediction
PKGCIAEN_00020 Mercury (Hg) 80.9 3.2e-60 1 141 1.0000 1.0000 prediction
PKGCIAEN_00021 Mercury (Hg) 100 3.5e-81 1 151 1.0000 1.0000 prediction






        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
PKGCIAEN_00041 ACI02865.1|GH23 98.7 8.73e-157 1 225 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