Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3075
  Reference Plasmid   DT2007045302-1_bin.3__k141_2243841
  Reference Plasmid Size   4406
  Reference Plasmid GC Content   0.38
  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
M0071095 PBMACLEA_00001 276 5 Skin 0.26 protein_coding upstream_gene_variant MODIFIER -284T>C None
M0071096 PBMACLEA_00001 459 5 Skin 0.26 protein_coding upstream_gene_variant MODIFIER -101T>G None
M0071097 PBMACLEA_00002 1885 3 Skin 0.16 protein_coding synonymous_variant LOW 816C>T Thr272Thr
M0071098 PBMACLEA_00002 1898 9 Skin 0.47 protein_coding missense_variant MODERATE 829C>T Pro277Ser
M0071099 PBMACLEA_00003 2310 3 Skin 0.16 protein_coding synonymous_variant LOW 418C>A Arg140Arg
M0071100 PBMACLEA_00003 3264 13 Skin 0.68 protein_coding missense_variant MODERATE 1372A>G Thr458Ala
M0071101 PBMACLEA_00004 3487 13 Skin 0.68 protein_coding missense_variant MODERATE 896A>G His299Arg
M0071102 PBMACLEA_00004 3612 3 Skin 0.16 protein_coding synonymous_variant LOW 771C>T Ser257Ser
M0071103 PBMACLEA_00004 3687 8 Skin 0.42 protein_coding synonymous_variant LOW 696C>T Ala232Ala
M0071104 PBMACLEA_00004 4060 6 Skin 0.32 protein_coding missense_variant MODERATE 323C>T Thr108Ile
M0071105 PBMACLEA_00003 2197 3 Skin 0.16 protein_coding missense_variant MODERATE 305G>A Cys102Tyr
M0071106 PBMACLEA_00003 2918 3 Skin 0.16 protein_coding synonymous_variant LOW 1026T>C Pro342Pro
M0071107 PBMACLEA_00004 3469 4 Skin 0.21 protein_coding missense_variant MODERATE 914C>A Ser305Tyr
M0071108 PBMACLEA_00004 3481 3 Skin 0.16 protein_coding missense_variant MODERATE 902A>G Lys301Arg
M0071109 PBMACLEA_00001 67 3 Skin 0.16 protein_coding upstream_gene_variant MODIFIER -493A>G None
M0071110 PBMACLEA_00004 3876 3 Skin 0.16 protein_coding synonymous_variant LOW 507G>A Arg169Arg






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