Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C246
  Reference Plasmid   LR961947.1
  Reference Plasmid Size   41166
  Reference Plasmid GC Content   0.34
  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
M0149585 MPCFICON_00008 9906 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3896A>G None
M0149586 MPCFICON_00008 9907 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3897G>C None
M0149587 MPCFICON_00008 9910 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3900A>C None
M0149588 MPCFICON_00008 9912 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3902A>T None
M0149589 MPCFICON_00008 9913 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3903C>A None
M0149590 MPCFICON_00008 9916 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3906C>T None
M0149591 MPCFICON_00016 10130 3 Gut 1.00 protein_coding missense_variant MODERATE 865T>A Ser289Thr
M0149592 MPCFICON_00016 10823 3 Gut 1.00 protein_coding missense_variant MODERATE 172G>A Ala58Thr
M0149593 MPCFICON_00016 10958 3 Gut 1.00 protein_coding missense_variant MODERATE 37G>T Val13Leu
M0149594 MPCFICON_00016 10978 3 Gut 1.00 protein_coding missense_variant MODERATE 17A>C Tyr6Ser
M0149595 MPCFICON_00008 11007 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4997T>C None






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
MPCFICON_00025 PHI:5205 HMPREF0351_10118 (WxL locusC) 89.8 3e-207 1 392 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
MPCFICON_00035 PHI:5205 HMPREF0351_10118 (WxL locusC) 75 1.5e-174 1 392 0.9899 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
MPCFICON_00042 PHI:5205 HMPREF0351_10118 (WxL locusC) 89.8 3e-207 1 392 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis 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