Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3277
  Reference Plasmid   MET0734_bin.2_new__k81_39708
  Reference Plasmid Size   2040
  Reference Plasmid GC Content   0.35
  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
M0133745 CCCGECHC_00001 51 5 Oral 1.00 protein_coding missense_variant MODERATE 12G>T Lys4Asn
M0133746 CCCGECHC_00001 54 5 Oral 1.00 protein_coding synonymous_variant LOW 15G>A Glu5Glu
M0133747 CCCGECHC_00001 337 5 Oral 1.00 protein_coding synonymous_variant LOW 298T>C Leu100Leu
M0133748 CCCGECHC_00001 366 5 Oral 1.00 protein_coding missense_variant MODERATE 327T>A His109Gln
M0133749 CCCGECHC_00001 744 5 Oral 1.00 protein_coding synonymous_variant LOW 705A>G Arg235Arg
M0133750 CCCGECHC_00001 762 5 Oral 1.00 protein_coding synonymous_variant LOW 723T>C His241His
M0133751 CCCGECHC_00001 897 5 Oral 1.00 protein_coding synonymous_variant LOW 858G>A Leu286Leu
M0133752 CCCGECHC_00001 927 5 Oral 1.00 protein_coding synonymous_variant LOW 888T>C Asn296Asn
M0133753 CCCGECHC_00001 1047 4 Oral 0.80 protein_coding synonymous_variant LOW 1008T>C Pro336Pro
M0133754 CCCGECHC_00002 1097 5 Oral 1.00 protein_coding synonymous_variant LOW 6C>T Leu2Leu
M0133755 CCCGECHC_00002 1181 5 Oral 1.00 protein_coding synonymous_variant LOW 90T>A Arg30Arg
M0133756 CCCGECHC_00002 1331 3 Oral 0.60 protein_coding missense_variant MODERATE 240T>A Asp80Glu
M0133757 CCCGECHC_00002 1334 4 Oral 0.80 protein_coding synonymous_variant LOW 243C>A Ala81Ala
M0133758 CCCGECHC_00002 1337 3 Oral 0.60 protein_coding synonymous_variant LOW 246G>A Leu82Leu
M0133759 CCCGECHC_00002 1412 4 Oral 0.80 protein_coding synonymous_variant LOW 321C>T Ser107Ser
M0133760 CCCGECHC_00002 1433 5 Oral 1.00 protein_coding synonymous_variant LOW 342T>G Ala114Ala
M0133761 CCCGECHC_00003 1606 3 Oral 0.60 protein_coding synonymous_variant LOW 78C>T Thr26Thr
M0133762 CCCGECHC_00003 1655 3 Oral 0.60 protein_coding synonymous_variant LOW 127A>C Arg43Arg
M0133763 CCCGECHC_00003 1684 3 Oral 0.60 protein_coding synonymous_variant LOW 156A>T Ala52Ala
M0133764 CCCGECHC_00001 849 4 Oral 0.80 protein_coding synonymous_variant LOW 810G>A Leu270Leu
M0133765 CCCGECHC_00001 885 3 Oral 0.60 protein_coding synonymous_variant LOW 846A>T Ser282Ser
M0133766 CCCGECHC_00001 1737 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *657A>G None
M0133767 CCCGECHC_00002 1184 3 Oral 0.60 protein_coding synonymous_variant LOW 93A>T Ala31Ala
M0133768 CCCGECHC_00002 1274 3 Oral 0.60 protein_coding synonymous_variant LOW 183A>G Thr61Thr






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