Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2407
  Reference Plasmid   1111525849768046_bin.37__k141_187817
  Reference Plasmid Size   4509
  Reference Plasmid GC Content   0.40
  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
M0122922 OENPNMLJ_00002 3232 3 Oral 0.43 protein_coding synonymous_variant LOW 108T>A Ser36Ser
M0122923 OENPNMLJ_00003 3420 4 Oral 0.57 protein_coding synonymous_variant LOW 1059G>A Val353Val
M0122924 OENPNMLJ_00003 3659 3 Oral 0.43 protein_coding missense_variant MODERATE 820A>T Thr274Ser
M0122925 OENPNMLJ_00003 3696 3 Oral 0.43 protein_coding synonymous_variant LOW 783T>A Leu261Leu
M0122926 OENPNMLJ_00003 3698 3 Oral 0.43 protein_coding missense_variant MODERATE 781C>A Leu261Ile
M0122927 OENPNMLJ_00003 3702 3 Oral 0.43 protein_coding synonymous_variant LOW 777C>A Gly259Gly
M0122928 OENPNMLJ_00003 3703 3 Oral 0.43 protein_coding missense_variant MODERATE 776G>C Gly259Ala
M0122929 OENPNMLJ_00003 3720 3 Oral 0.43 protein_coding synonymous_variant LOW 759T>G Ser253Ser
M0122930 OENPNMLJ_00003 4104 4 Oral 0.57 protein_coding synonymous_variant LOW 375A>T Arg125Arg
M0122931 OENPNMLJ_00003 4128 3 Oral 0.43 protein_coding synonymous_variant LOW 351G>A Ala117Ala
M0122932 OENPNMLJ_00003 4149 4 Oral 0.57 protein_coding synonymous_variant LOW 330A>T Pro110Pro
M0122933 OENPNMLJ_00003 4431 3 Oral 0.43 protein_coding synonymous_variant LOW 48T>C His16His
M0122934 OENPNMLJ_00001 2055 4 Oral 0.57 protein_coding synonymous_variant LOW 588C>T Asp196Asp
M0122935 OENPNMLJ_00001 2070 4 Oral 0.57 protein_coding synonymous_variant LOW 573A>G Lys191Lys
M0122936 OENPNMLJ_00002 3286 3 Oral 0.43 protein_coding synonymous_variant LOW 54C>T Asp18Asp
M0122937 OENPNMLJ_00002 3288 3 Oral 0.43 protein_coding missense_variant MODERATE 52G>C Asp18His
M0122938 OENPNMLJ_00001 378 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *1386C>G None
M0122939 OENPNMLJ_00001 419 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *1345A>G None
M0122940 OENPNMLJ_00001 593 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *1171T>A None
M0122941 OENPNMLJ_00001 596 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *1168C>T None
M0122942 OENPNMLJ_00001 599 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *1165A>G None
M0122943 OENPNMLJ_00001 632 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *1132C>T None
M0122944 OENPNMLJ_00001 638 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *1126T>A None
M0122945 OENPNMLJ_00001 647 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *1117A>T None
M0122946 OENPNMLJ_00001 657 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *1107T>C None
M0122947 OENPNMLJ_00001 818 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *946A>C None
M0122948 OENPNMLJ_00001 854 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *910T>A None
M0122949 OENPNMLJ_00001 902 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *862T>C None
M0122950 OENPNMLJ_00001 1012 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *752A>G None
M0122951 OENPNMLJ_00001 1016 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *748C>T None
M0122952 OENPNMLJ_00001 1064 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *700G>A None
M0122953 OENPNMLJ_00001 1066 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *698A>T None
M0122954 OENPNMLJ_00001 1067 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *697A>T None
M0122955 OENPNMLJ_00001 1068 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *696C>A None
M0122956 OENPNMLJ_00001 1069 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *695A>T None
M0122957 OENPNMLJ_00001 1076 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *688A>G None
M0122958 OENPNMLJ_00001 1079 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *685T>A None
M0122959 OENPNMLJ_00001 1084 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *680C>T None
M0122960 OENPNMLJ_00001 1130 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *634C>A None
M0122961 OENPNMLJ_00001 1159 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *605C>T None
M0122962 OENPNMLJ_00001 1165 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *599A>C None
M0122963 OENPNMLJ_00001 1190 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *574A>G None
M0122964 OENPNMLJ_00001 1243 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *521G>C None
M0122965 OENPNMLJ_00001 1246 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *518G>A None
M0122966 OENPNMLJ_00001 1276 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *488T>G None
M0122967 OENPNMLJ_00001 1282 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *482T>C None
M0122968 OENPNMLJ_00001 1283 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *481A>G None
M0122969 OENPNMLJ_00001 1916 3 Oral 0.43 protein_coding missense_variant MODERATE 727A>G Ile243Val






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