Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3163
  Reference Plasmid   MET0293_bin.10__k81_21916
  Reference Plasmid Size   4810
  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
M0076748 EADHFIMK_00002 974 3 Skin 1.00 protein_coding synonymous_variant LOW 282G>A Gly94Gly
M0076749 EADHFIMK_00002 986 3 Skin 1.00 protein_coding synonymous_variant LOW 294C>T Val98Val
M0076750 EADHFIMK_00002 1049 3 Skin 1.00 protein_coding synonymous_variant LOW 357T>A Pro119Pro
M0076751 EADHFIMK_00002 1054 3 Skin 1.00 protein_coding missense_variant MODERATE 362A>G Lys121Arg
M0076752 EADHFIMK_00002 1058 3 Skin 1.00 protein_coding synonymous_variant LOW 366G>A Lys122Lys
M0076753 EADHFIMK_00002 1061 3 Skin 1.00 protein_coding synonymous_variant LOW 369G>A Leu123Leu
M0076754 EADHFIMK_00002 1064 3 Skin 1.00 protein_coding synonymous_variant LOW 372A>G Val124Val
M0076755 EADHFIMK_00002 1073 3 Skin 1.00 protein_coding synonymous_variant LOW 381C>T Arg127Arg
M0076756 EADHFIMK_00002 1082 3 Skin 1.00 protein_coding synonymous_variant LOW 390G>A Leu130Leu
M0076757 EADHFIMK_00002 1094 3 Skin 1.00 protein_coding synonymous_variant LOW 402C>T Arg134Arg
M0076758 EADHFIMK_00004 2863 3 Skin 1.00 protein_coding synonymous_variant LOW 147C>T Gly49Gly
M0076759 EADHFIMK_00004 3061 3 Skin 1.00 protein_coding synonymous_variant LOW 345G>A Thr115Thr
M0076760 EADHFIMK_00004 3070 3 Skin 1.00 protein_coding synonymous_variant LOW 354C>A Val118Val






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
EADHFIMK_00002 VFG051056 T6SS 88 8.6e-80 1 167 1.0 1 Effector delivery system type VI secretion system contractile sheath small subunit experiment
EADHFIMK_00003 VFG051070 T6SS 91.9 7.3e-268 6 498 0.99 1 Effector delivery system type VI secretion system contractile sheath large subunit experiment
EADHFIMK_00004 VFG051042 T6SS 95.2 3.4e-92 1 167 1.0 1 Effector delivery system type VI secretion system tube protein Hcp experiment
EADHFIMK_00005 VFG050986 T6SS 80.9 1e-69 1 157 0.9937 0.9937 Effector delivery system type VI secretion system baseplate subunit TssE experiment
EADHFIMK_00002 VFG051056 T6SS 88 6.5e-79 1 167 1.0 1 Effector delivery system type VI secretion system contractile sheath small subunit prediction
EADHFIMK_00003 VFG051070 T6SS 91.9 5.5e-267 6 498 0.99 1 Effector delivery system type VI secretion system contractile sheath large subunit prediction
EADHFIMK_00004 VFG051042 T6SS 95.2 2.5e-91 1 167 1.0 1 Effector delivery system type VI secretion system tube protein Hcp prediction
EADHFIMK_00005 VFG050986 T6SS 80.9 7.5e-69 1 157 0.9937 0.9937 Effector delivery system type VI secretion system baseplate subunit TssE prediction







        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
EADHFIMK_00003 3.A.23.4.1 91.9 5.1e-268 6 498 0.9900 1.3544 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.23 The Type VI Symbiosis/Virulence Secretory System (T6SS) Family
EADHFIMK_00006 3.A.23.4.1 75.2 2.3e-136 1 313 0.9751 0.8626 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.23 The Type VI Symbiosis/Virulence Secretory System (T6SS) Family