Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C411
  Reference Plasmid   NZ_CP009047.1
  Reference Plasmid Size   37688
  Reference Plasmid GC Content   0.27
  Reference Plasmid Mobility Type   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
M0164000 GHIICHOO_00041 25140 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4627G>A None
M0164001 GHIICHOO_00014 9011 4 Gut 0.33 protein_coding missense_variant MODERATE 527T>C Phe176Ser
M0164002 GHIICHOO_00015 9821 4 Gut 0.33 protein_coding synonymous_variant LOW 177T>C Ala59Ala
M0164003 GHIICHOO_00012 10016 4 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -3234G>A None
M0164004 GHIICHOO_00012 10140 4 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -3358G>A None
M0164005 GHIICHOO_00012 10153 4 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -3371A>G None
M0164006 GHIICHOO_00017 11875 3 Gut 0.25 protein_coding missense_variant MODERATE 1034T>C Leu345Ser
M0164007 GHIICHOO_00014 12119 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -2582C>T None
M0164008 GHIICHOO_00018 12275 3 Gut 0.25 protein_coding start_lost HIGH 3G>A Met1?
M0164009 GHIICHOO_00019 12690 3 Gut 0.25 protein_coding missense_variant MODERATE 53A>G Tyr18Cys
M0164010 GHIICHOO_00021 13418 3 Gut 0.25 protein_coding missense_variant MODERATE 262A>G Thr88Ala
M0164011 GHIICHOO_00014 14300 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -4763A>G None
M0164012 GHIICHOO_00023 15140 3 Gut 0.25 protein_coding synonymous_variant LOW 805C>T Leu269Leu
M0164013 GHIICHOO_00021 16284 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -2605A>G None
M0164014 GHIICHOO_00021 16304 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -2625A>G None
M0164015 GHIICHOO_00024 16741 3 Gut 0.25 protein_coding synonymous_variant LOW 354C>T Thr118Thr






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