Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3140
  Reference Plasmid   MET0241_bin.25__k81_61120
  Reference Plasmid Size   3943
  Reference Plasmid GC Content   0.72
  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
M0076368 OJGHGKFG_00001 97 4 Skin 0.67 protein_coding upstream_gene_variant MODIFIER -15T>C None
M0076369 OJGHGKFG_00001 101 4 Skin 0.67 protein_coding upstream_gene_variant MODIFIER -11T>G None
M0076370 OJGHGKFG_00001 466 3 Skin 0.50 protein_coding missense_variant MODERATE 355T>C Cys119Arg
M0076371 OJGHGKFG_00001 473 3 Skin 0.50 protein_coding missense_variant MODERATE 362A>G Asp121Gly
M0076372 OJGHGKFG_00001 581 4 Skin 0.67 protein_coding missense_variant MODERATE 470T>C Leu157Pro
M0076373 OJGHGKFG_00001 678 3 Skin 0.50 protein_coding synonymous_variant LOW 567C>T Arg189Arg
M0076374 OJGHGKFG_00001 800 3 Skin 0.50 protein_coding missense_variant MODERATE 689G>A Gly230Asp
M0076375 OJGHGKFG_00001 870 3 Skin 0.50 protein_coding synonymous_variant LOW 759C>T Gly253Gly
M0076376 OJGHGKFG_00001 1181 3 Skin 0.50 protein_coding missense_variant MODERATE 1070A>G Asp357Gly
M0076377 OJGHGKFG_00002 1315 3 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -90C>T None
M0076378 OJGHGKFG_00002 1356 3 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -49C>T None
M0076379 OJGHGKFG_00002 1388 3 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -17A>G None
M0076380 OJGHGKFG_00002 1758 3 Skin 0.50 protein_coding synonymous_variant LOW 354C>T Ser118Ser
M0076381 OJGHGKFG_00003 2061 3 Skin 0.50 protein_coding synonymous_variant LOW 141C>T Gly47Gly
M0076382 OJGHGKFG_00003 2505 5 Skin 0.83 protein_coding synonymous_variant LOW 585C>G Leu195Leu
M0076383 OJGHGKFG_00003 2589 3 Skin 0.50 protein_coding synonymous_variant LOW 669C>T Ala223Ala
M0076384 OJGHGKFG_00001 1130 3 Skin 0.50 protein_coding missense_variant MODERATE 1019T>C Ile340Thr
M0076385 OJGHGKFG_00003 2433 3 Skin 0.50 protein_coding synonymous_variant LOW 513C>A Gly171Gly






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