Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2367
  Reference Plasmid   1111525849768046_bin.37__k141_110866
  Reference Plasmid Size   4776
  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
M0119311 PJKGEEJC_00001 106 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *387C>T None
M0119312 PJKGEEJC_00001 109 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *384C>T None
M0119313 PJKGEEJC_00001 136 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *357G>A None
M0119314 PJKGEEJC_00001 138 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *355T>C None
M0119315 PJKGEEJC_00001 241 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *252C>A None
M0119316 PJKGEEJC_00001 322 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *171A>T None
M0119317 PJKGEEJC_00001 328 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *165T>C None
M0119318 PJKGEEJC_00001 580 5 Oral 1.00 protein_coding synonymous_variant LOW 936T>C Ile312Ile
M0119319 PJKGEEJC_00001 736 5 Oral 1.00 protein_coding synonymous_variant LOW 780G>A Gly260Gly
M0119320 PJKGEEJC_00001 856 3 Oral 0.60 protein_coding synonymous_variant LOW 660G>A Ala220Ala
M0119321 PJKGEEJC_00001 889 4 Oral 0.80 protein_coding synonymous_variant LOW 627T>C His209His
M0119322 PJKGEEJC_00001 907 3 Oral 0.60 protein_coding synonymous_variant LOW 609G>A Val203Val
M0119323 PJKGEEJC_00001 925 5 Oral 1.00 protein_coding synonymous_variant LOW 591G>T Pro197Pro
M0119324 PJKGEEJC_00001 937 5 Oral 1.00 protein_coding synonymous_variant LOW 579C>T Asn193Asn
M0119325 PJKGEEJC_00001 943 3 Oral 0.60 protein_coding synonymous_variant LOW 573C>T Asn191Asn
M0119326 PJKGEEJC_00001 976 5 Oral 1.00 protein_coding synonymous_variant LOW 540T>C Asp180Asp
M0119327 PJKGEEJC_00001 1294 3 Oral 0.60 protein_coding synonymous_variant LOW 222T>C Thr74Thr
M0119328 PJKGEEJC_00001 1339 5 Oral 1.00 protein_coding synonymous_variant LOW 177T>A Val59Val
M0119329 PJKGEEJC_00002 1777 5 Oral 1.00 protein_coding synonymous_variant LOW 612G>T Ala204Ala
M0119330 PJKGEEJC_00002 1885 4 Oral 0.80 protein_coding synonymous_variant LOW 504T>C Gly168Gly
M0119331 PJKGEEJC_00002 1917 5 Oral 1.00 protein_coding missense_variant MODERATE 472A>G Ser158Gly
M0119332 PJKGEEJC_00002 1936 5 Oral 1.00 protein_coding missense_variant MODERATE 453T>G Asp151Glu
M0119333 PJKGEEJC_00001 2528 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1013T>G None
M0119334 PJKGEEJC_00001 763 3 Oral 0.60 protein_coding synonymous_variant LOW 753T>C Gly251Gly
M0119335 PJKGEEJC_00001 835 3 Oral 0.60 protein_coding synonymous_variant LOW 681C>T Gly227Gly
M0119336 PJKGEEJC_00002 1864 3 Oral 0.60 protein_coding synonymous_variant LOW 525G>A Ala175Ala






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