Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C642
  Reference Plasmid   NZ_CP040803.1
  Reference Plasmid Size   183700
  Reference Plasmid GC Content   0.35
  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
M0170108 ILJMJAHB_00156 147772 3 Gut 0.13 protein_coding synonymous_variant LOW 30T>C Asn10Asn
M0170109 ILJMJAHB_00151 147806 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -4339T>G None
M0170110 ILJMJAHB_00151 147824 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -4357C>A None
M0170111 ILJMJAHB_00157 147887 3 Gut 0.13 protein_coding missense_variant MODERATE 928A>G Asn310Asp
M0170112 ILJMJAHB_00157 147905 3 Gut 0.13 protein_coding missense_variant MODERATE 910G>A Asp304Asn
M0170113 ILJMJAHB_00157 148017 3 Gut 0.13 protein_coding synonymous_variant LOW 798C>T Ser266Ser
M0170114 ILJMJAHB_00157 148073 3 Gut 0.13 protein_coding missense_variant MODERATE 742T>C Cys248Arg
M0170115 ILJMJAHB_00157 148107 3 Gut 0.13 protein_coding synonymous_variant LOW 708C>T Ser236Ser
M0170116 ILJMJAHB_00157 148140 3 Gut 0.13 protein_coding missense_variant MODERATE 675T>G Asp225Glu
M0170117 ILJMJAHB_00157 148145 3 Gut 0.13 protein_coding synonymous_variant LOW 670C>T Leu224Leu
M0170118 ILJMJAHB_00157 148156 3 Gut 0.13 protein_coding missense_variant MODERATE 659A>G Asn220Ser
M0170119 ILJMJAHB_00157 148158 3 Gut 0.13 protein_coding missense_variant MODERATE 657T>A Asp219Glu
M0170120 ILJMJAHB_00157 148170 3 Gut 0.13 protein_coding synonymous_variant LOW 645C>T Asp215Asp
M0170121 ILJMJAHB_00157 148287 3 Gut 0.13 protein_coding synonymous_variant LOW 528A>G Lys176Lys
M0170122 ILJMJAHB_00157 148298 3 Gut 0.13 protein_coding missense_variant MODERATE 517T>A Cys173Ser
M0170123 ILJMJAHB_00157 148299 3 Gut 0.13 protein_coding synonymous_variant LOW 516G>A Glu172Glu
M0170124 ILJMJAHB_00157 148317 3 Gut 0.13 protein_coding synonymous_variant LOW 498A>T Gly166Gly
M0170125 ILJMJAHB_00078 76748 3 Gut 0.13 protein_coding synonymous_variant LOW 555A>G Lys185Lys
M0170126 ILJMJAHB_00079 77177 3 Gut 0.13 protein_coding synonymous_variant LOW 324A>G Val108Val
M0170127 ILJMJAHB_00079 77248 4 Gut 0.17 protein_coding missense_variant MODERATE 395T>C Ile132Thr
M0170128 ILJMJAHB_00079 77270 4 Gut 0.17 protein_coding synonymous_variant LOW 417T>C Tyr139Tyr
M0170129 ILJMJAHB_00080 77402 3 Gut 0.13 protein_coding synonymous_variant LOW 9G>A Glu3Glu
M0170130 ILJMJAHB_00080 77431 3 Gut 0.13 protein_coding missense_variant MODERATE 38A>C Glu13Ala
M0170131 ILJMJAHB_00080 77624 3 Gut 0.13 protein_coding synonymous_variant LOW 231G>A Gln77Gln
M0170132 ILJMJAHB_00080 77638 3 Gut 0.13 protein_coding missense_variant MODERATE 245G>T Arg82Leu
M0170133 ILJMJAHB_00080 77741 3 Gut 0.13 protein_coding synonymous_variant LOW 348T>C Tyr116Tyr
M0170134 ILJMJAHB_00081 77864 3 Gut 0.13 protein_coding missense_variant MODERATE 25T>G Ser9Ala
M0170135 ILJMJAHB_00081 77938 3 Gut 0.13 protein_coding synonymous_variant LOW 99G>C Gly33Gly
M0170136 ILJMJAHB_00081 78007 3 Gut 0.13 protein_coding synonymous_variant LOW 168A>G Glu56Glu






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