Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2408
  Reference Plasmid   1111525849768046_bin.37__k141_188381
  Reference Plasmid Size   2910
  Reference Plasmid GC Content   0.36
  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
M0122970 GAMJKHAN_00002 782 4 Oral 0.80 protein_coding synonymous_variant LOW 78G>T Ala26Ala
M0122971 GAMJKHAN_00002 935 3 Oral 0.60 protein_coding synonymous_variant LOW 231T>A Arg77Arg
M0122972 GAMJKHAN_00002 956 3 Oral 0.60 protein_coding synonymous_variant LOW 252G>A Leu84Leu
M0122973 GAMJKHAN_00002 1181 3 Oral 0.60 protein_coding synonymous_variant LOW 477T>C His159His
M0122974 GAMJKHAN_00002 1193 3 Oral 0.60 protein_coding synonymous_variant LOW 489G>T Gly163Gly
M0122975 GAMJKHAN_00002 1445 3 Oral 0.60 protein_coding synonymous_variant LOW 741C>T Phe247Phe
M0122976 GAMJKHAN_00002 1448 3 Oral 0.60 protein_coding synonymous_variant LOW 744G>A Glu248Glu
M0122977 GAMJKHAN_00002 1601 3 Oral 0.60 protein_coding synonymous_variant LOW 897T>C Gly299Gly
M0122978 GAMJKHAN_00002 1607 3 Oral 0.60 protein_coding synonymous_variant LOW 903T>C Phe301Phe
M0122979 GAMJKHAN_00002 1619 3 Oral 0.60 protein_coding synonymous_variant LOW 915G>A Arg305Arg
M0122980 GAMJKHAN_00002 1625 3 Oral 0.60 protein_coding synonymous_variant LOW 921G>A Ala307Ala
M0122981 GAMJKHAN_00002 1631 3 Oral 0.60 protein_coding synonymous_variant LOW 927A>G Leu309Leu
M0122982 GAMJKHAN_00002 1786 3 Oral 0.60 protein_coding missense_variant MODERATE 1082T>C Val361Ala
M0122983 GAMJKHAN_00002 1787 3 Oral 0.60 protein_coding synonymous_variant LOW 1083G>A Val361Val
M0122984 GAMJKHAN_00002 1817 3 Oral 0.60 protein_coding synonymous_variant LOW 1113C>T Tyr371Tyr
M0122985 GAMJKHAN_00002 1847 3 Oral 0.60 protein_coding synonymous_variant LOW 1143G>A Leu381Leu
M0122986 GAMJKHAN_00001 213 4 Oral 0.80 protein_coding missense_variant MODERATE 199G>A Asp67Asn
M0122987 GAMJKHAN_00001 233 3 Oral 0.60 protein_coding synonymous_variant LOW 219G>A Lys73Lys
M0122988 GAMJKHAN_00001 245 3 Oral 0.60 protein_coding synonymous_variant LOW 231G>A Glu77Glu
M0122989 GAMJKHAN_00001 248 4 Oral 0.80 protein_coding synonymous_variant LOW 234C>A Thr78Thr
M0122990 GAMJKHAN_00001 264 4 Oral 0.80 protein_coding missense_variant MODERATE 250A>G Asn84Asp
M0122991 GAMJKHAN_00001 278 3 Oral 0.60 protein_coding synonymous_variant LOW 264C>T Ser88Ser
M0122992 GAMJKHAN_00001 292 4 Oral 0.80 protein_coding missense_variant MODERATE 278G>A Gly93Glu
M0122993 GAMJKHAN_00001 410 4 Oral 0.80 protein_coding missense_variant MODERATE 396G>A Met132Ile
M0122994 GAMJKHAN_00001 500 3 Oral 0.60 protein_coding synonymous_variant LOW 486G>A Pro162Pro
M0122995 GAMJKHAN_00001 522 3 Oral 0.60 protein_coding missense_variant MODERATE 508T>C Ser170Pro
M0122996 GAMJKHAN_00001 559 4 Oral 0.80 protein_coding missense_variant MODERATE 545G>C Ser182Thr
M0122997 GAMJKHAN_00001 285 3 Oral 0.60 protein_coding missense_variant MODERATE 271G>A Ala91Thr






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