Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2473
  Reference Plasmid   1111525849768046_bin.37__k141_84240
  Reference Plasmid Size   4520
  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
M0128804 CPCPHCIF_00001 311 4 Oral 0.67 protein_coding missense_variant MODERATE 498C>G Asp166Glu
M0128805 CPCPHCIF_00001 323 5 Oral 0.83 protein_coding synonymous_variant LOW 486G>A Glu162Glu
M0128806 CPCPHCIF_00001 327 4 Oral 0.67 protein_coding missense_variant MODERATE 482G>A Ser161Asn
M0128807 CPCPHCIF_00002 993 3 Oral 0.50 protein_coding synonymous_variant LOW 561G>A Leu187Leu
M0128808 CPCPHCIF_00002 1131 3 Oral 0.50 protein_coding synonymous_variant LOW 423G>A Ser141Ser
M0128809 CPCPHCIF_00003 1607 5 Oral 0.83 protein_coding missense_variant MODERATE 905C>A Thr302Lys
M0128810 CPCPHCIF_00003 2413 4 Oral 0.67 protein_coding synonymous_variant LOW 99T>C Ile33Ile
M0128811 CPCPHCIF_00001 2524 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1716C>T None
M0128812 CPCPHCIF_00004 2995 3 Oral 0.50 protein_coding synonymous_variant LOW 528T>C Asp176Asp
M0128813 CPCPHCIF_00004 3004 4 Oral 0.67 protein_coding synonymous_variant LOW 519C>T Asp173Asp
M0128814 CPCPHCIF_00004 3013 3 Oral 0.50 protein_coding synonymous_variant LOW 510G>A Leu170Leu
M0128815 CPCPHCIF_00004 3145 3 Oral 0.50 protein_coding synonymous_variant LOW 378T>A Ala126Ala
M0128816 CPCPHCIF_00004 3148 3 Oral 0.50 protein_coding synonymous_variant LOW 375T>C Phe125Phe
M0128817 CPCPHCIF_00005 3878 4 Oral 0.67 protein_coding synonymous_variant LOW 177T>C Asn59Asn
M0128818 CPCPHCIF_00005 4022 5 Oral 0.83 protein_coding synonymous_variant LOW 321C>T Gly107Gly
M0128819 CPCPHCIF_00003 1864 3 Oral 0.50 protein_coding synonymous_variant LOW 648C>T His216His
M0128820 CPCPHCIF_00003 1888 3 Oral 0.50 protein_coding synonymous_variant LOW 624A>G Lys208Lys
M0128821 CPCPHCIF_00003 1957 3 Oral 0.50 protein_coding synonymous_variant LOW 555A>G Gln185Gln
M0128822 CPCPHCIF_00005 4007 3 Oral 0.50 protein_coding synonymous_variant LOW 306A>T Ser102Ser
M0128823 CPCPHCIF_00005 4031 3 Oral 0.50 protein_coding synonymous_variant LOW 330G>A Pro110Pro
M0128824 CPCPHCIF_00005 4052 3 Oral 0.50 protein_coding synonymous_variant LOW 351T>G Ala117Ala
M0128825 CPCPHCIF_00005 4064 3 Oral 0.50 protein_coding synonymous_variant LOW 363A>G Lys121Lys
M0128826 CPCPHCIF_00005 4071 3 Oral 0.50 protein_coding synonymous_variant LOW 370C>T Leu124Leu
M0128827 CPCPHCIF_00005 4118 3 Oral 0.50 protein_coding synonymous_variant LOW 417G>A Lys139Lys
M0128828 CPCPHCIF_00005 4121 3 Oral 0.50 protein_coding synonymous_variant LOW 420G>A Gln140Gln






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