Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C229
  Reference Plasmid   HG796777.1
  Reference Plasmid Size   4785
  Reference Plasmid GC Content   0.42
  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
M0149136 DEFKNGAE_00001 129 11 Gut 0.55 protein_coding missense_variant MODERATE 118T>G Ser40Ala
M0149137 DEFKNGAE_00006 3480 11 Gut 0.55 protein_coding missense_variant MODERATE 1020A>C Glu340Asp
M0149138 DEFKNGAE_00007 3774 11 Gut 0.55 protein_coding missense_variant MODERATE 208A>G Ile70Val
M0149139 DEFKNGAE_00007 3779 6 Gut 0.30 protein_coding synonymous_variant LOW 213C>T Ala71Ala
M0149140 DEFKNGAE_00002 4284 17 Gut 0.85 protein_coding upstream_gene_variant MODIFIER -3140G>T None
M0149141 DEFKNGAE_00002 4285 17 Gut 0.85 protein_coding upstream_gene_variant MODIFIER -3141A>T None
M0149142 DEFKNGAE_00002 4286 17 Gut 0.85 protein_coding upstream_gene_variant MODIFIER -3142A>T None
M0149143 DEFKNGAE_00002 4287 17 Gut 0.85 protein_coding upstream_gene_variant MODIFIER -3143A>C None
M0149144 DEFKNGAE_00008 4664 6 Gut 0.30 protein_coding synonymous_variant LOW 84G>A Pro28Pro
M0149145 DEFKNGAE_00002 1125 8 Gut 0.40 protein_coding missense_variant MODERATE 20T>G Phe7Cys
M0149146 DEFKNGAE_00002 1247 4 Gut 0.20 protein_coding upstream_gene_variant MODIFIER -103T>A None
M0149147 DEFKNGAE_00002 2197 12 Gut 0.60 protein_coding upstream_gene_variant MODIFIER -1053A>G None
M0149148 DEFKNGAE_00002 2290 4 Gut 0.20 protein_coding upstream_gene_variant MODIFIER -1146C>T None
M0149149 DEFKNGAE_00006 2970 5 Gut 0.25 protein_coding synonymous_variant LOW 510G>A Gln170Gln
M0149150 DEFKNGAE_00001 473 3 Gut 0.15 protein_coding synonymous_variant LOW 462T>C Arg154Arg
M0149151 DEFKNGAE_00001 615 3 Gut 0.15 protein_coding missense_variant MODERATE 604A>G Ser202Gly
M0149152 DEFKNGAE_00002 893 3 Gut 0.15 protein_coding synonymous_variant LOW 252C>A Leu84Leu
M0149153 DEFKNGAE_00002 970 3 Gut 0.15 protein_coding missense_variant MODERATE 175T>A Ser59Thr
M0149154 DEFKNGAE_00002 980 3 Gut 0.15 protein_coding synonymous_variant LOW 165C>A Thr55Thr
M0149155 DEFKNGAE_00002 2093 7 Gut 0.35 protein_coding upstream_gene_variant MODIFIER -949A>T None
M0149156 DEFKNGAE_00001 351 3 Gut 0.15 protein_coding stop_gained HIGH 340C>T Gln114*
M0149157 DEFKNGAE_00001 411 3 Gut 0.15 protein_coding missense_variant MODERATE 400G>A Val134Ile
M0149158 DEFKNGAE_00002 819 3 Gut 0.15 protein_coding missense_variant MODERATE 326A>G Lys109Arg
M0149159 DEFKNGAE_00002 968 3 Gut 0.15 protein_coding synonymous_variant LOW 177C>G Ser59Ser






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