Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3023
  Reference Plasmid   DSKIN0041-1_bin.40__k141_464
  Reference Plasmid Size   10871
  Reference Plasmid GC Content   0.69
  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
M0069838 BONAFLFH_00004 3924 3 Skin 0.38 protein_coding synonymous_variant LOW 969A>G Gly323Gly
M0069839 BONAFLFH_00004 4131 3 Skin 0.38 protein_coding synonymous_variant LOW 762T>C Ala254Ala
M0069840 BONAFLFH_00004 4590 4 Skin 0.50 protein_coding synonymous_variant LOW 303A>G Ala101Ala
M0069841 BONAFLFH_00005 5117 6 Skin 0.75 protein_coding synonymous_variant LOW 285T>C Pro95Pro
M0069842 BONAFLFH_00005 5401 3 Skin 0.38 protein_coding missense_variant MODERATE 1G>A Val1Met
M0069843 BONAFLFH_00003 5451 6 Skin 0.75 protein_coding upstream_gene_variant MODIFIER -1684A>G None
M0069844 BONAFLFH_00003 5463 6 Skin 0.75 protein_coding upstream_gene_variant MODIFIER -1696A>T None
M0069845 BONAFLFH_00006 6680 6 Skin 0.75 protein_coding synonymous_variant LOW 1314G>C Ala438Ala
M0069846 BONAFLFH_00006 6731 6 Skin 0.75 protein_coding synonymous_variant LOW 1263G>A Ala421Ala
M0069847 BONAFLFH_00006 6754 6 Skin 0.75 protein_coding missense_variant MODERATE 1240A>G Asn414Asp
M0069848 BONAFLFH_00006 7760 5 Skin 0.63 protein_coding synonymous_variant LOW 234A>T Pro78Pro
M0069849 BONAFLFH_00007 8212 3 Skin 0.38 protein_coding synonymous_variant LOW 885G>C Ala295Ala
M0069850 BONAFLFH_00007 8248 3 Skin 0.38 protein_coding synonymous_variant LOW 849G>C Arg283Arg
M0069851 BONAFLFH_00007 8491 4 Skin 0.50 protein_coding synonymous_variant LOW 606A>G Glu202Glu
M0069852 BONAFLFH_00007 8545 3 Skin 0.38 protein_coding synonymous_variant LOW 552C>T Asp184Asp
M0069853 BONAFLFH_00007 8564 3 Skin 0.38 protein_coding missense_variant MODERATE 533G>A Arg178His
M0069854 BONAFLFH_00007 8566 3 Skin 0.38 protein_coding synonymous_variant LOW 531A>G Pro177Pro
M0069855 BONAFLFH_00007 8581 3 Skin 0.38 protein_coding synonymous_variant LOW 516A>C Ala172Ala
M0069856 BONAFLFH_00007 8833 4 Skin 0.50 protein_coding synonymous_variant LOW 264T>C Ala88Ala
M0069857 BONAFLFH_00007 8352 4 Skin 0.50 protein_coding missense_variant MODERATE 745T>G Ser249Ala
M0069858 BONAFLFH_00005 5171 3 Skin 0.38 protein_coding synonymous_variant LOW 231C>G Arg77Arg
M0069859 BONAFLFH_00006 6007 5 Skin 0.63 protein_coding synonymous_variant LOW 1987T>C Leu663Leu
M0069860 BONAFLFH_00006 6056 3 Skin 0.38 protein_coding synonymous_variant LOW 1938G>A Ala646Ala
M0069861 BONAFLFH_00006 6107 3 Skin 0.38 protein_coding synonymous_variant LOW 1887A>C Arg629Arg
M0069862 BONAFLFH_00006 6122 3 Skin 0.38 protein_coding synonymous_variant LOW 1872A>T Ala624Ala
M0069863 BONAFLFH_00006 6158 3 Skin 0.38 protein_coding synonymous_variant LOW 1836C>A Ala612Ala
M0069864 BONAFLFH_00006 6311 4 Skin 0.50 protein_coding synonymous_variant LOW 1683C>G Thr561Thr
M0069865 BONAFLFH_00006 6352 4 Skin 0.50 protein_coding missense_variant MODERATE 1642T>C Phe548Leu
M0069866 BONAFLFH_00006 6370 4 Skin 0.50 protein_coding missense_variant MODERATE 1624G>A Gly542Ser
M0069867 BONAFLFH_00006 7178 5 Skin 0.63 protein_coding synonymous_variant LOW 816G>C Ala272Ala
M0069868 BONAFLFH_00006 7187 5 Skin 0.63 protein_coding synonymous_variant LOW 807C>T Ser269Ser
M0069869 BONAFLFH_00006 6326 3 Skin 0.38 protein_coding synonymous_variant LOW 1668C>T Gly556Gly
M0069870 BONAFLFH_00004 4530 3 Skin 0.38 protein_coding synonymous_variant LOW 363C>A Gly121Gly
M0069871 BONAFLFH_00004 4548 3 Skin 0.38 protein_coding synonymous_variant LOW 345T>C Asp115Asp
M0069872 BONAFLFH_00004 4569 3 Skin 0.38 protein_coding synonymous_variant LOW 324C>T Ala108Ala
M0069873 BONAFLFH_00003 5405 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -1638C>T 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






        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