Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3374
  Reference Plasmid   MGYG000299029__MGYG000299029_316
  Reference Plasmid Size   7992
  Reference Plasmid GC Content   0.45
  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
M0137694 LKBGGKJG_00002 2881 3 Oral 1.00 protein_coding synonymous_variant LOW 1116A>C Leu372Leu
M0137695 LKBGGKJG_00002 2911 3 Oral 1.00 protein_coding synonymous_variant LOW 1146T>C Asp382Asp
M0137696 LKBGGKJG_00002 2980 3 Oral 1.00 protein_coding synonymous_variant LOW 1215C>T Val405Val
M0137697 LKBGGKJG_00002 3178 3 Oral 1.00 protein_coding synonymous_variant LOW 1413C>T His471His
M0137698 LKBGGKJG_00001 3406 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *1933T>C None
M0137699 LKBGGKJG_00001 3414 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *1941T>G None
M0137700 LKBGGKJG_00001 3415 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *1942C>T None
M0137701 LKBGGKJG_00001 3491 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *2018T>C None
M0137702 LKBGGKJG_00001 3665 3 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *2192A>G None
M0137703 LKBGGKJG_00003 3771 3 Oral 1.00 protein_coding synonymous_variant LOW 1830G>A Glu610Glu
M0137704 LKBGGKJG_00003 3795 3 Oral 1.00 protein_coding missense_variant MODERATE 1806G>T Gln602His
M0137705 LKBGGKJG_00003 3892 3 Oral 1.00 protein_coding missense_variant MODERATE 1709T>C Leu570Ser
M0137706 LKBGGKJG_00003 3954 3 Oral 1.00 protein_coding synonymous_variant LOW 1647T>C Phe549Phe
M0137707 LKBGGKJG_00003 4008 3 Oral 1.00 protein_coding synonymous_variant LOW 1593T>C Ile531Ile
M0137708 LKBGGKJG_00003 4020 3 Oral 1.00 protein_coding synonymous_variant LOW 1581C>T Ile527Ile
M0137709 LKBGGKJG_00003 4220 3 Oral 1.00 protein_coding missense_variant MODERATE 1381G>C Val461Leu
M0137710 LKBGGKJG_00003 4275 3 Oral 1.00 protein_coding synonymous_variant LOW 1326T>C Ala442Ala
M0137711 LKBGGKJG_00003 4311 3 Oral 1.00 protein_coding synonymous_variant LOW 1290T>C Asp430Asp
M0137712 LKBGGKJG_00003 4580 3 Oral 1.00 protein_coding missense_variant MODERATE 1021G>A Val341Ile
M0137713 LKBGGKJG_00003 4707 3 Oral 1.00 protein_coding synonymous_variant LOW 894T>C Ile298Ile
M0137714 LKBGGKJG_00003 4752 3 Oral 1.00 protein_coding synonymous_variant LOW 849C>T Asn283Asn
M0137715 LKBGGKJG_00003 5129 3 Oral 1.00 protein_coding synonymous_variant LOW 472T>C Leu158Leu
M0137716 LKBGGKJG_00003 5256 3 Oral 1.00 protein_coding synonymous_variant LOW 345A>G Arg115Arg
M0137717 LKBGGKJG_00004 6015 3 Oral 1.00 protein_coding synonymous_variant LOW 1347C>T Ala449Ala






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
LKBGGKJG_00002 VEH15064.1|GH109 87.6 0 1 515 1 0.9213





        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