Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3246
  Reference Plasmid   MET0639_bin.29__k81_284943
  Reference Plasmid Size   2068
  Reference Plasmid GC Content   0.57
  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
M0133721 FOOJLIHF_00001 511 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *394T>G None
M0133722 FOOJLIHF_00001 512 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *393G>T None
M0133723 FOOJLIHF_00001 546 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *359A>G None
M0133724 FOOJLIHF_00001 613 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *292C>T None
M0133725 FOOJLIHF_00001 655 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *250C>A None
M0133726 FOOJLIHF_00001 688 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *217T>C None
M0133727 FOOJLIHF_00001 769 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *136G>A None
M0133728 FOOJLIHF_00001 790 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *115T>G None
M0133729 FOOJLIHF_00001 793 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *112T>C None
M0133730 FOOJLIHF_00001 802 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *103A>G None
M0133731 FOOJLIHF_00001 826 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *79G>A None
M0133732 FOOJLIHF_00001 889 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *16A>C None
M0133733 FOOJLIHF_00001 907 3 Oral 1.00 protein_coding stop_lost&splice_region_variant HIGH 1018T>C Ter340Argext*?
M0133734 FOOJLIHF_00001 937 3 Oral 1.00 protein_coding missense_variant MODERATE 988A>G Ser330Gly
M0133735 FOOJLIHF_00001 946 3 Oral 1.00 protein_coding missense_variant MODERATE 979A>G Thr327Ala
M0133736 FOOJLIHF_00001 994 3 Oral 1.00 protein_coding missense_variant MODERATE 931T>G Tyr311Asp
M0133737 FOOJLIHF_00001 1054 3 Oral 1.00 protein_coding missense_variant MODERATE 871C>T His291Tyr
M0133738 FOOJLIHF_00001 1093 3 Oral 1.00 protein_coding missense_variant MODERATE 832A>G Arg278Gly
M0133739 FOOJLIHF_00001 1171 3 Oral 1.00 protein_coding missense_variant MODERATE 754A>G Lys252Glu
M0133740 FOOJLIHF_00001 1174 3 Oral 1.00 protein_coding missense_variant MODERATE 751T>C Phe251Leu
M0133741 FOOJLIHF_00001 1304 3 Oral 1.00 protein_coding synonymous_variant LOW 621C>T Thr207Thr
M0133742 FOOJLIHF_00001 1306 3 Oral 1.00 protein_coding missense_variant MODERATE 619A>G Thr207Ala
M0133743 FOOJLIHF_00001 1315 3 Oral 1.00 protein_coding missense_variant MODERATE 610A>G Ser204Gly
M0133744 FOOJLIHF_00001 1345 3 Oral 1.00 protein_coding missense_variant MODERATE 580C>G Pro194Ala






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