Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3187
  Reference Plasmid   MET0310_bin.42__k81_121798
  Reference Plasmid Size   2396
  Reference Plasmid GC Content   0.41
  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
M0078675 CINJHNJE_00001 983 3 Skin 0.60 protein_coding synonymous_variant LOW 9A>G Ser3Ser
M0078676 CINJHNJE_00001 989 3 Skin 0.60 protein_coding synonymous_variant LOW 15C>T Ile5Ile
M0078677 CINJHNJE_00001 1077 3 Skin 0.60 protein_coding missense_variant MODERATE 103A>G Ser35Gly
M0078678 CINJHNJE_00001 1139 3 Skin 0.60 protein_coding synonymous_variant LOW 165T>A Pro55Pro
M0078679 CINJHNJE_00001 1166 3 Skin 0.60 protein_coding synonymous_variant LOW 192T>G Gly64Gly
M0078680 CINJHNJE_00001 1211 3 Skin 0.60 protein_coding synonymous_variant LOW 237C>T Gly79Gly
M0078681 CINJHNJE_00001 1358 4 Skin 0.80 protein_coding synonymous_variant LOW 384T>C Ala128Ala
M0078682 CINJHNJE_00001 1442 3 Skin 0.60 protein_coding synonymous_variant LOW 468T>A Ser156Ser
M0078683 CINJHNJE_00001 1487 3 Skin 0.60 protein_coding synonymous_variant LOW 513C>A Thr171Thr
M0078684 CINJHNJE_00001 1553 3 Skin 0.60 protein_coding synonymous_variant LOW 579A>G Ala193Ala
M0078685 CINJHNJE_00001 1574 4 Skin 0.80 protein_coding synonymous_variant LOW 600G>T Val200Val
M0078686 CINJHNJE_00001 1763 3 Skin 0.60 protein_coding synonymous_variant LOW 789T>A Ala263Ala
M0078687 CINJHNJE_00001 1790 3 Skin 0.60 protein_coding synonymous_variant LOW 816G>A Val272Val
M0078688 CINJHNJE_00001 2081 3 Skin 0.60 protein_coding synonymous_variant LOW 1107T>C Asn369Asn
M0078689 CINJHNJE_00001 2099 4 Skin 0.80 protein_coding synonymous_variant LOW 1125C>G Val375Val
M0078690 CINJHNJE_00001 2112 3 Skin 0.60 protein_coding missense_variant MODERATE 1138C>T Leu380Phe
M0078691 CINJHNJE_00001 2114 3 Skin 0.60 protein_coding synonymous_variant LOW 1140T>A Leu380Leu
M0078692 CINJHNJE_00001 2174 3 Skin 0.60 protein_coding downstream_gene_variant MODIFIER *39G>A None
M0078693 CINJHNJE_00001 2177 3 Skin 0.60 protein_coding downstream_gene_variant MODIFIER *42T>C None
M0078694 CINJHNJE_00001 2180 3 Skin 0.60 protein_coding downstream_gene_variant MODIFIER *45A>G None
M0078695 CINJHNJE_00001 2243 3 Skin 0.60 protein_coding downstream_gene_variant MODIFIER *108C>G 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
CINJHNJE_00001 PHI:7214 STM14_1005 81.4 6.7e-191 6 386 0.9870 0.9845 rodents salmonellosis putative acyl-CoA dehydrogenase 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