Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C458
  Reference Plasmid   NZ_CP017467.1
  Reference Plasmid Size   40183
  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
M0088667 IHELILLJ_00005 3915 7 Skin 0.58 protein_coding missense_variant MODERATE 429A>G Ile143Met
M0088668 IHELILLJ_00005 3936 7 Skin 0.58 protein_coding synonymous_variant LOW 408T>C Ala136Ala
M0088669 IHELILLJ_00005 3975 7 Skin 0.58 protein_coding synonymous_variant LOW 369C>T Asp123Asp
M0088670 IHELILLJ_00005 3984 7 Skin 0.58 protein_coding synonymous_variant LOW 360T>C Gly120Gly
M0088671 IHELILLJ_00005 4020 4 Skin 0.33 protein_coding synonymous_variant LOW 324T>C Ser108Ser
M0088672 IHELILLJ_00005 4300 6 Skin 0.50 protein_coding missense_variant MODERATE 44C>T Ala15Val
M0088673 IHELILLJ_00001 4370 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4004G>A None
M0088674 IHELILLJ_00001 4375 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4009G>T None
M0088675 IHELILLJ_00001 4383 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -4017G>A None
M0088676 IHELILLJ_00001 4401 8 Skin 0.67 protein_coding upstream_gene_variant MODIFIER -4035G>A None
M0088677 IHELILLJ_00001 4403 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4037C>T None
M0088678 IHELILLJ_00001 4417 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -4051G>A None
M0088679 IHELILLJ_00001 4424 7 Skin 0.58 protein_coding upstream_gene_variant MODIFIER -4058T>C None
M0088680 IHELILLJ_00001 4444 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -4078C>T None
M0088681 IHELILLJ_00001 4447 7 Skin 0.58 protein_coding upstream_gene_variant MODIFIER -4081G>A None
M0088682 IHELILLJ_00001 4483 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -4117G>A None
M0088683 IHELILLJ_00001 4522 6 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -4156A>C None
M0088684 IHELILLJ_00001 4539 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4173T>G None
M0088685 IHELILLJ_00001 4544 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -4178G>T None
M0088686 IHELILLJ_00001 2852 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -2486T>C None
M0088687 IHELILLJ_00001 2883 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -2517G>A None
M0088688 IHELILLJ_00001 2891 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -2525T>C None
M0088689 IHELILLJ_00001 2911 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -2545T>C None
M0088690 IHELILLJ_00001 2916 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -2550C>T None
M0088691 IHELILLJ_00001 2919 5 Skin 0.42 protein_coding upstream_gene_variant MODIFIER -2553T>G None
M0088692 IHELILLJ_00005 3213 5 Skin 0.42 protein_coding missense_variant MODERATE 1131A>G Ile377Met
M0088693 IHELILLJ_00005 3729 5 Skin 0.42 protein_coding synonymous_variant LOW 615T>C Phe205Phe
M0088694 IHELILLJ_00005 3764 4 Skin 0.33 protein_coding synonymous_variant LOW 580C>T Leu194Leu
M0088695 IHELILLJ_00005 3942 6 Skin 0.50 protein_coding missense_variant MODERATE 402T>A Asp134Glu
M0088696 IHELILLJ_00005 4014 3 Skin 0.25 protein_coding synonymous_variant LOW 330T>C Gly110Gly
M0088697 IHELILLJ_00005 4056 3 Skin 0.25 protein_coding synonymous_variant LOW 288T>C His96His
M0088698 IHELILLJ_00005 4058 3 Skin 0.25 protein_coding missense_variant MODERATE 286C>A His96Asn
M0088699 IHELILLJ_00005 4069 3 Skin 0.25 protein_coding missense_variant MODERATE 275G>A Arg92Lys
M0088700 IHELILLJ_00005 4092 3 Skin 0.25 protein_coding synonymous_variant LOW 252C>T Thr84Thr
M0088701 IHELILLJ_00005 4097 3 Skin 0.25 protein_coding missense_variant MODERATE 247A>G Asn83Asp
M0088702 IHELILLJ_00005 4149 3 Skin 0.25 protein_coding synonymous_variant LOW 195A>G Ser65Ser
M0088703 IHELILLJ_00005 4170 3 Skin 0.25 protein_coding synonymous_variant LOW 174A>G Leu58Leu
M0088704 IHELILLJ_00001 4609 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4243C>T None
M0088705 IHELILLJ_00001 2628 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2262T>A None
M0088706 IHELILLJ_00001 2655 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2289C>T None
M0088707 IHELILLJ_00001 2691 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2325G>A None
M0088708 IHELILLJ_00001 2910 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2544T>C None
M0088709 IHELILLJ_00005 3125 4 Skin 0.33 protein_coding missense_variant MODERATE 1219G>A Val407Ile
M0088710 IHELILLJ_00005 3141 4 Skin 0.33 protein_coding synonymous_variant LOW 1203C>T Asn401Asn
M0088711 IHELILLJ_00001 2784 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -2418T>C None
M0088712 IHELILLJ_00005 3550 3 Skin 0.25 protein_coding missense_variant MODERATE 794A>G Asn265Ser
M0088713 IHELILLJ_00005 3647 3 Skin 0.25 protein_coding missense_variant MODERATE 697G>A Glu233Lys
M0088714 IHELILLJ_00005 3885 3 Skin 0.25 protein_coding synonymous_variant LOW 459C>T Gly153Gly
M0088715 IHELILLJ_00005 3978 3 Skin 0.25 protein_coding synonymous_variant LOW 366C>T Asn122Asn
M0088716 IHELILLJ_00005 4135 3 Skin 0.25 protein_coding missense_variant MODERATE 209G>A Gly70Asp
M0088717 IHELILLJ_00005 4176 3 Skin 0.25 protein_coding missense_variant MODERATE 168A>T Gln56His
M0088718 IHELILLJ_00005 4239 3 Skin 0.25 protein_coding synonymous_variant LOW 105G>A Glu35Glu






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
IHELILLJ_00015 Cadmium (Cd), Zinc (Zn) 93.7 7.2e-100 1 205 1.0000 1.0000 experiment
NCFFFDIN_00015 Cadmium (Cd), Zinc (Zn) 93.7 7.2e-100 1 205 1.0000 1.0000 experiment
IHELILLJ_00015 Cadmium (Cd), Zinc (Zn) 100 1e-102 1 205 1.0000 1.0000 prediction
NCFFFDIN_00015 Cadmium (Cd), Zinc (Zn) 100 1e-102 1 205 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
IHELILLJ_00026 PHI:11807 ohyA 74.1 1.6e-268 1 591 1.0000 1.0000 rodents skin infection; food poisoning; respiratory disease oleate hydratase reduced virulence
NCFFFDIN_00026 PHI:11807 ohyA 74.1 1.6e-268 1 591 1.0000 1.0000 rodents skin infection; food poisoning; respiratory disease oleate hydratase reduced virulence






        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
IHELILLJ_00015 2.A.77.1.1 93.2 6e-98 1 205 1.0000 0.9809 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.77 The Cadmium Resistance (CadD) Family
NCFFFDIN_00015 2.A.77.1.1 93.2 6e-98 1 205 1.0000 0.9809 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.77 The Cadmium Resistance (CadD) Family