Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C5
  Reference Plasmid   NC_013384.1
  Reference Plasmid Size   6794
  Reference Plasmid GC Content   0.30
  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
M0084636 PPBMBDEG_00009 6484 3 Skin 0.50 protein_coding missense_variant MODERATE 937A>G Ile313Val
M0084637 PPBMBDEG_00009 6534 3 Skin 0.50 protein_coding synonymous_variant LOW 987T>G Gly329Gly
M0084638 PPBMBDEG_00004 6692 3 Skin 0.50 protein_coding downstream_gene_variant MODIFIER *4892C>A None
M0084639 PPBMBDEG_00002 787 4 Skin 0.67 protein_coding missense_variant MODERATE 351A>T Glu117Asp
M0152753 BAPKGEOK_00007 4138 3 Gut 0.60 protein_coding upstream_gene_variant MODIFIER -69T>C None
M0152754 BAPKGEOK_00007 4215 3 Gut 0.60 protein_coding synonymous_variant LOW 9C>A Thr3Thr
M0152755 BAPKGEOK_00007 4258 3 Gut 0.60 protein_coding missense_variant MODERATE 52A>G Asn18Asp
M0152756 BAPKGEOK_00007 4878 3 Gut 0.60 protein_coding synonymous_variant LOW 672A>G Leu224Leu
M0152757 BAPKGEOK_00007 5190 3 Gut 0.60 protein_coding synonymous_variant LOW 984G>A Leu328Leu
M0152758 BAPKGEOK_00007 5315 3 Gut 0.60 protein_coding stop_gained HIGH 1109T>G Leu370*
M0152759 BAPKGEOK_00008 5321 3 Gut 0.60 protein_coding start_lost HIGH 3G>T Met1?
M0152760 BAPKGEOK_00008 5501 3 Gut 0.60 protein_coding synonymous_variant LOW 183A>T Arg61Arg
M0152761 BAPKGEOK_00008 5502 3 Gut 0.60 protein_coding missense_variant MODERATE 184C>T Leu62Phe
M0152762 BAPKGEOK_00008 5504 3 Gut 0.60 protein_coding synonymous_variant LOW 186C>A Leu62Leu
M0152763 BAPKGEOK_00009 5706 3 Gut 0.60 protein_coding synonymous_variant LOW 159C>T Val53Val
M0152764 BAPKGEOK_00009 5823 3 Gut 0.60 protein_coding synonymous_variant LOW 276T>C Ala92Ala
M0152765 BAPKGEOK_00009 5833 3 Gut 0.60 protein_coding missense_variant MODERATE 286A>C Lys96Gln
M0152766 BAPKGEOK_00009 5868 3 Gut 0.60 protein_coding synonymous_variant LOW 321C>T Tyr107Tyr
M0152767 BAPKGEOK_00009 5971 3 Gut 0.60 protein_coding synonymous_variant LOW 424C>T Leu142Leu
M0152768 BAPKGEOK_00009 6114 3 Gut 0.60 protein_coding missense_variant MODERATE 567A>T Gln189His
M0152769 BAPKGEOK_00009 6117 3 Gut 0.60 protein_coding synonymous_variant LOW 570C>G Leu190Leu
M0152770 BAPKGEOK_00009 6124 3 Gut 0.60 protein_coding missense_variant MODERATE 577A>G Ile193Val
M0152771 BAPKGEOK_00009 6126 3 Gut 0.60 protein_coding missense_variant MODERATE 579A>G Ile193Met
M0152772 BAPKGEOK_00009 6132 3 Gut 0.60 protein_coding synonymous_variant LOW 585C>T Asp195Asp
M0152773 BAPKGEOK_00009 6134 3 Gut 0.60 protein_coding missense_variant MODERATE 587T>A Phe196Tyr
M0152774 BAPKGEOK_00009 6135 3 Gut 0.60 protein_coding synonymous_variant LOW 588T>C Phe196Phe
M0152775 BAPKGEOK_00009 6211 3 Gut 0.60 protein_coding synonymous_variant LOW 664T>C Leu222Leu
M0152776 BAPKGEOK_00009 6255 3 Gut 0.60 protein_coding synonymous_variant LOW 708C>T Asn236Asn
M0152777 BAPKGEOK_00009 6372 3 Gut 0.60 protein_coding synonymous_variant LOW 825A>G Thr275Thr
M0152778 BAPKGEOK_00009 6402 3 Gut 0.60 protein_coding synonymous_variant LOW 855A>G Leu285Leu
M0152779 BAPKGEOK_00009 6405 3 Gut 0.60 protein_coding synonymous_variant LOW 858T>G Val286Val
M0152780 BAPKGEOK_00009 6406 3 Gut 0.60 protein_coding synonymous_variant LOW 859C>T Leu287Leu
M0152781 BAPKGEOK_00009 6417 3 Gut 0.60 protein_coding synonymous_variant LOW 870C>T Asn290Asn
M0152782 BAPKGEOK_00009 6439 3 Gut 0.60 protein_coding synonymous_variant LOW 892C>T Leu298Leu
M0152783 BAPKGEOK_00009 6453 3 Gut 0.60 protein_coding synonymous_variant LOW 906G>A Glu302Glu
M0152784 BAPKGEOK_00009 6484 3 Gut 0.60 protein_coding missense_variant MODERATE 937A>G Ile313Val






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