Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3018
  Reference Plasmid   DSKIN0040-1_bin.6__k141_32146
  Reference Plasmid Size   5082
  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
M0069744 GPJELBMM_00003 1945 5 Skin 0.83 protein_coding synonymous_variant LOW 396A>C Gly132Gly
M0069745 GPJELBMM_00003 2053 4 Skin 0.67 protein_coding synonymous_variant LOW 504T>G Pro168Pro
M0069746 GPJELBMM_00005 3338 6 Skin 1.00 protein_coding upstream_gene_variant MODIFIER -158C>A None
M0069747 GPJELBMM_00005 3348 5 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -148C>G None
M0069748 GPJELBMM_00005 3349 5 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -147G>C None
M0069749 GPJELBMM_00005 3354 5 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -142A>G None
M0069750 GPJELBMM_00005 3358 5 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -138C>G None
M0069751 GPJELBMM_00005 3359 5 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -137G>C None
M0069752 GPJELBMM_00005 3373 5 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -123A>G None
M0069753 GPJELBMM_00005 3415 5 Skin 0.83 protein_coding upstream_gene_variant MODIFIER -81A>G None
M0069754 GPJELBMM_00001 253 4 Skin 0.67 protein_coding synonymous_variant LOW 159G>T Val53Val
M0069755 GPJELBMM_00001 397 3 Skin 0.50 protein_coding synonymous_variant LOW 303C>T Asp101Asp
M0069756 GPJELBMM_00002 673 4 Skin 0.67 protein_coding missense_variant MODERATE 203G>A Gly68Asp
M0069757 GPJELBMM_00002 1080 3 Skin 0.50 protein_coding synonymous_variant LOW 610T>C Leu204Leu
M0069758 GPJELBMM_00002 1094 3 Skin 0.50 protein_coding synonymous_variant LOW 624C>T Asp208Asp
M0069759 GPJELBMM_00002 1100 3 Skin 0.50 protein_coding synonymous_variant LOW 630G>C Val210Val
M0069760 GPJELBMM_00002 1163 3 Skin 0.50 protein_coding synonymous_variant LOW 693C>A Pro231Pro
M0069761 GPJELBMM_00002 1169 3 Skin 0.50 protein_coding synonymous_variant LOW 699C>T His233His
M0069762 GPJELBMM_00003 1669 3 Skin 0.50 protein_coding synonymous_variant LOW 120A>G Gln40Gln
M0069763 GPJELBMM_00003 1708 3 Skin 0.50 protein_coding synonymous_variant LOW 159G>A Thr53Thr
M0069764 GPJELBMM_00003 1741 3 Skin 0.50 protein_coding synonymous_variant LOW 192A>G Glu64Glu
M0069765 GPJELBMM_00004 3247 3 Skin 0.50 protein_coding synonymous_variant LOW 729C>G Ala243Ala
M0069766 GPJELBMM_00002 896 3 Skin 0.50 protein_coding synonymous_variant LOW 426C>T Asp142Asp
M0069767 GPJELBMM_00002 1409 3 Skin 0.50 protein_coding missense_variant MODERATE 939A>T Gln313His
M0069768 GPJELBMM_00003 1939 3 Skin 0.50 protein_coding synonymous_variant LOW 390T>C Asp130Asp
M0069769 GPJELBMM_00003 1967 3 Skin 0.50 protein_coding missense_variant MODERATE 418G>A Ala140Thr






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