Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3296
  Reference Plasmid   MGYG000298099__MGYG000298099_27
  Reference Plasmid Size   3547
  Reference Plasmid GC Content   0.41
  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
M0134126 PPOGOGDK_00001 221 3 Oral 0.60 protein_coding synonymous_variant LOW 2565T>C Thr855Thr
M0134127 PPOGOGDK_00001 275 4 Oral 0.80 protein_coding synonymous_variant LOW 2511C>T Asp837Asp
M0134128 PPOGOGDK_00001 530 4 Oral 0.80 protein_coding synonymous_variant LOW 2256T>G Ala752Ala
M0134129 PPOGOGDK_00001 533 5 Oral 1.00 protein_coding synonymous_variant LOW 2253A>G Glu751Glu
M0134130 PPOGOGDK_00001 617 4 Oral 0.80 protein_coding synonymous_variant LOW 2169T>A Ile723Ile
M0134131 PPOGOGDK_00001 653 5 Oral 1.00 protein_coding synonymous_variant LOW 2133C>T Thr711Thr
M0134132 PPOGOGDK_00001 668 4 Oral 0.80 protein_coding synonymous_variant LOW 2118C>A Thr706Thr
M0134133 PPOGOGDK_00001 671 4 Oral 0.80 protein_coding synonymous_variant LOW 2115C>T Asn705Asn
M0134134 PPOGOGDK_00001 674 4 Oral 0.80 protein_coding synonymous_variant LOW 2112T>A Gly704Gly
M0134135 PPOGOGDK_00001 704 4 Oral 0.80 protein_coding synonymous_variant LOW 2082T>A Pro694Pro
M0134136 PPOGOGDK_00001 1037 4 Oral 0.80 protein_coding synonymous_variant LOW 1749G>A Ala583Ala
M0134137 PPOGOGDK_00001 1070 5 Oral 1.00 protein_coding synonymous_variant LOW 1716T>A Thr572Thr
M0134138 PPOGOGDK_00001 1088 4 Oral 0.80 protein_coding synonymous_variant LOW 1698C>A Thr566Thr
M0134139 PPOGOGDK_00001 1091 4 Oral 0.80 protein_coding synonymous_variant LOW 1695T>C Tyr565Tyr
M0134140 PPOGOGDK_00001 1103 5 Oral 1.00 protein_coding synonymous_variant LOW 1683C>T Leu561Leu
M0134141 PPOGOGDK_00001 1106 5 Oral 1.00 protein_coding synonymous_variant LOW 1680A>G Glu560Glu
M0134142 PPOGOGDK_00001 1118 3 Oral 0.60 protein_coding synonymous_variant LOW 1668T>C Ala556Ala
M0134143 PPOGOGDK_00001 1148 5 Oral 1.00 protein_coding synonymous_variant LOW 1638T>C Thr546Thr
M0134144 PPOGOGDK_00001 1220 4 Oral 0.80 protein_coding synonymous_variant LOW 1566C>T Thr522Thr
M0134145 PPOGOGDK_00001 1316 4 Oral 0.80 protein_coding synonymous_variant LOW 1470T>A Ala490Ala
M0134146 PPOGOGDK_00001 1382 3 Oral 0.60 protein_coding synonymous_variant LOW 1404G>A Glu468Glu
M0134147 PPOGOGDK_00001 1529 3 Oral 0.60 protein_coding synonymous_variant LOW 1257G>A Ala419Ala
M0134148 PPOGOGDK_00001 1652 5 Oral 1.00 protein_coding synonymous_variant LOW 1134G>A Thr378Thr
M0134149 PPOGOGDK_00001 1694 4 Oral 0.80 protein_coding synonymous_variant LOW 1092T>C His364His
M0134150 PPOGOGDK_00001 1697 4 Oral 0.80 protein_coding synonymous_variant LOW 1089A>G Gly363Gly
M0134151 PPOGOGDK_00001 2099 3 Oral 0.60 protein_coding synonymous_variant LOW 687G>A Glu229Glu
M0134152 PPOGOGDK_00001 2153 3 Oral 0.60 protein_coding synonymous_variant LOW 633A>G Pro211Pro
M0134153 PPOGOGDK_00001 2183 3 Oral 0.60 protein_coding synonymous_variant LOW 603A>G Glu201Glu
M0134154 PPOGOGDK_00001 2507 3 Oral 0.60 protein_coding synonymous_variant LOW 279G>A Leu93Leu
M0134155 PPOGOGDK_00001 2935 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -150A>G None
M0134156 PPOGOGDK_00001 2958 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -173A>T None
M0134157 PPOGOGDK_00001 146 4 Oral 0.80 protein_coding synonymous_variant LOW 2640G>A Val880Val
M0134158 PPOGOGDK_00001 424 3 Oral 0.60 protein_coding missense_variant MODERATE 2362A>C Lys788Gln
M0134159 PPOGOGDK_00001 941 3 Oral 0.60 protein_coding synonymous_variant LOW 1845T>A Ala615Ala
M0134160 PPOGOGDK_00001 1246 3 Oral 0.60 protein_coding missense_variant MODERATE 1540T>G Ser514Ala
M0134161 PPOGOGDK_00001 1928 3 Oral 0.60 protein_coding synonymous_variant LOW 858C>T Asn286Asn
M0134162 PPOGOGDK_00001 2354 3 Oral 0.60 protein_coding synonymous_variant LOW 432G>A Gln144Gln
M0134163 PPOGOGDK_00001 152 3 Oral 0.60 protein_coding synonymous_variant LOW 2634C>T His878His
M0134164 PPOGOGDK_00001 242 3 Oral 0.60 protein_coding synonymous_variant LOW 2544T>C Gly848Gly






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