Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3333
  Reference Plasmid   MGYG000298616__MGYG000298616_85
  Reference Plasmid Size   5013
  Reference Plasmid GC Content   0.63
  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
M0135578 DHCPODON_00004 3424 3 Oral 1.00 protein_coding synonymous_variant LOW 405C>T Asp135Asp
M0135579 DHCPODON_00004 3573 3 Oral 1.00 protein_coding synonymous_variant LOW 256T>C Leu86Leu
M0135580 DHCPODON_00004 3586 3 Oral 1.00 protein_coding synonymous_variant LOW 243A>G Val81Val
M0135581 DHCPODON_00004 3619 3 Oral 1.00 protein_coding synonymous_variant LOW 210C>T Gly70Gly
M0135582 DHCPODON_00004 3661 3 Oral 1.00 protein_coding synonymous_variant LOW 168C>T Ser56Ser
M0135583 DHCPODON_00004 3667 3 Oral 1.00 protein_coding synonymous_variant LOW 162G>C Val54Val
M0135584 DHCPODON_00004 3772 3 Oral 1.00 protein_coding synonymous_variant LOW 57T>C Thr19Thr
M0135585 DHCPODON_00005 4055 3 Oral 1.00 protein_coding synonymous_variant LOW 687T>C Leu229Leu
M0135586 DHCPODON_00005 4079 3 Oral 1.00 protein_coding synonymous_variant LOW 663G>C Val221Val
M0135587 DHCPODON_00005 4084 3 Oral 1.00 protein_coding missense_variant MODERATE 658C>G Leu220Val
M0135588 DHCPODON_00005 4331 3 Oral 1.00 protein_coding synonymous_variant LOW 411C>G Ala137Ala
M0135589 DHCPODON_00005 4376 3 Oral 1.00 protein_coding synonymous_variant LOW 366T>C Gly122Gly






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