Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3310
  Reference Plasmid   MGYG000298297__MGYG000298297_233
  Reference Plasmid Size   11753
  Reference Plasmid GC Content   0.40
  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
M0134777 ADKMGFDO_00004 9020 3 Oral 0.50 protein_coding synonymous_variant LOW 1083T>C Asn361Asn
M0134778 ADKMGFDO_00005 10093 3 Oral 0.50 protein_coding synonymous_variant LOW 246C>T Phe82Phe
M0134779 ADKMGFDO_00005 10213 4 Oral 0.67 protein_coding synonymous_variant LOW 366T>C His122His
M0134780 ADKMGFDO_00005 10312 4 Oral 0.67 protein_coding synonymous_variant LOW 465G>A Gly155Gly
M0134781 ADKMGFDO_00005 10318 4 Oral 0.67 protein_coding synonymous_variant LOW 471A>C Pro157Pro
M0134782 ADKMGFDO_00005 10486 4 Oral 0.67 protein_coding synonymous_variant LOW 639C>T Ala213Ala
M0134783 ADKMGFDO_00005 10555 3 Oral 0.50 protein_coding synonymous_variant LOW 708C>T Phe236Phe
M0134784 ADKMGFDO_00005 10723 3 Oral 0.50 protein_coding synonymous_variant LOW 876T>C Gly292Gly
M0134785 ADKMGFDO_00005 10789 4 Oral 0.67 protein_coding synonymous_variant LOW 942A>G Leu314Leu
M0134786 ADKMGFDO_00005 10811 4 Oral 0.67 protein_coding synonymous_variant LOW 964C>T Leu322Leu
M0134787 ADKMGFDO_00005 10963 4 Oral 0.67 protein_coding synonymous_variant LOW 1116T>C Ser372Ser
M0134788 ADKMGFDO_00005 11134 3 Oral 0.50 protein_coding synonymous_variant LOW 1287G>A Leu429Leu
M0134789 ADKMGFDO_00005 11209 4 Oral 0.67 protein_coding synonymous_variant LOW 1362T>C Phe454Phe
M0134790 ADKMGFDO_00005 11369 4 Oral 0.67 protein_coding synonymous_variant LOW 1522C>T Leu508Leu
M0134791 ADKMGFDO_00005 11553 4 Oral 0.67 protein_coding missense_variant MODERATE 1706G>A Arg569Gln
M0134792 ADKMGFDO_00005 9833 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -15T>A None
M0134793 ADKMGFDO_00004 7604 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -334T>C None
M0134794 ADKMGFDO_00004 7631 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -307A>G None
M0134795 ADKMGFDO_00004 7665 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -273C>G None
M0134796 ADKMGFDO_00004 7702 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -236A>G None
M0134797 ADKMGFDO_00004 7799 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -139A>G 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