Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C638
  Reference Plasmid   NZ_CP040529.1
  Reference Plasmid Size   33036
  Reference Plasmid GC Content   0.47
  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
M0170093 OJFNINDH_00009 6677 3 Gut 0.20 protein_coding synonymous_variant LOW 147G>A Leu49Leu
M0170094 OJFNINDH_00009 6690 3 Gut 0.20 protein_coding missense_variant MODERATE 134C>A Ala45Glu
M0170095 OJFNINDH_00009 6701 3 Gut 0.20 protein_coding synonymous_variant LOW 123C>T Ser41Ser
M0170096 OJFNINDH_00010 7080 3 Gut 0.20 protein_coding synonymous_variant LOW 114A>G Leu38Leu
M0170097 OJFNINDH_00009 9327 6 Gut 0.40 protein_coding upstream_gene_variant MODIFIER -2504G>A None
M0170098 OJFNINDH_00009 9786 4 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -2963G>A None
M0170099 OJFNINDH_00015 11557 4 Gut 0.27 protein_coding synonymous_variant LOW 1032A>G Thr344Thr
M0170100 OJFNINDH_00016 13700 3 Gut 0.20 protein_coding synonymous_variant LOW 924T>C Phe308Phe
M0170101 OJFNINDH_00025 21883 3 Gut 0.20 protein_coding synonymous_variant LOW 405T>C His135His
M0170102 OJFNINDH_00025 21914 3 Gut 0.20 protein_coding missense_variant MODERATE 436A>G Lys146Glu
M0170103 OJFNINDH_00028 23446 4 Gut 0.27 protein_coding synonymous_variant LOW 483T>C Gly161Gly






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