Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C94
  Reference Plasmid   CP054199.1
  Reference Plasmid Size   12493
  Reference Plasmid GC Content   0.43
  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
M0143839 KKHNAHGA_00009 5066 5 Gut 0.63 protein_coding missense_variant MODERATE 24A>T Leu8Phe
M0143840 KKHNAHGA_00001 5373 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4136G>T None
M0143841 KKHNAHGA_00001 5408 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4171C>T None
M0143842 KKHNAHGA_00001 5415 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4178T>C None
M0143843 KKHNAHGA_00001 5420 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4183C>T None
M0143844 KKHNAHGA_00001 5453 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4216A>G None
M0143845 KKHNAHGA_00001 5456 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4219C>A None
M0143846 KKHNAHGA_00001 5457 7 Gut 0.88 protein_coding upstream_gene_variant MODIFIER -4220T>C None
M0143847 KKHNAHGA_00001 5463 7 Gut 0.88 protein_coding upstream_gene_variant MODIFIER -4226C>G None
M0143848 KKHNAHGA_00001 5482 7 Gut 0.88 protein_coding upstream_gene_variant MODIFIER -4245C>T None
M0143849 KKHNAHGA_00001 5490 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4253T>C None
M0143850 KKHNAHGA_00001 5496 7 Gut 0.88 protein_coding upstream_gene_variant MODIFIER -4259A>T None
M0143851 KKHNAHGA_00001 5530 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4293C>T None
M0143852 KKHNAHGA_00010 5689 5 Gut 0.63 protein_coding missense_variant MODERATE 137G>T Arg46Met
M0143853 KKHNAHGA_00010 5702 3 Gut 0.38 protein_coding synonymous_variant LOW 150G>A Glu50Glu
M0143854 KKHNAHGA_00010 5783 5 Gut 0.63 protein_coding synonymous_variant LOW 231C>T Asp77Asp
M0143855 KKHNAHGA_00010 5795 5 Gut 0.63 protein_coding synonymous_variant LOW 243T>C Asp81Asp
M0143856 KKHNAHGA_00011 6043 5 Gut 0.63 protein_coding synonymous_variant LOW 243C>T Ile81Ile
M0143857 KKHNAHGA_00012 6147 4 Gut 0.50 protein_coding missense_variant MODERATE 61T>A Ser21Thr
M0143858 KKHNAHGA_00012 6148 4 Gut 0.50 protein_coding missense_variant MODERATE 62C>A Ser21Tyr
M0143859 KKHNAHGA_00012 6149 4 Gut 0.50 protein_coding synonymous_variant LOW 63T>C Ser21Ser
M0143860 KKHNAHGA_00012 6198 5 Gut 0.63 protein_coding missense_variant MODERATE 112A>G Ile38Val
M0143861 KKHNAHGA_00012 6228 4 Gut 0.50 protein_coding missense_variant MODERATE 142A>G Thr48Ala
M0143862 KKHNAHGA_00012 6249 3 Gut 0.38 protein_coding missense_variant MODERATE 163G>A Glu55Lys
M0143863 KKHNAHGA_00004 6340 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -3717G>A None
M0143864 KKHNAHGA_00004 6344 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -3721C>A None
M0143865 KKHNAHGA_00004 6356 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -3733A>G None
M0143866 KKHNAHGA_00014 7601 3 Gut 0.38 protein_coding synonymous_variant LOW 78T>C Asp26Asp
M0143867 KKHNAHGA_00020 11344 3 Gut 0.38 protein_coding missense_variant MODERATE 24A>T Leu8Phe
M0143868 KKHNAHGA_00001 5483 4 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4246A>T None
M0143869 KKHNAHGA_00001 5484 4 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4247A>T None
M0143870 KKHNAHGA_00001 5485 4 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4248A>G None
M0143871 KKHNAHGA_00001 5497 4 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4260C>T None
M0143872 KKHNAHGA_00001 5509 4 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -4272A>G None
M0143873 KKHNAHGA_00008 3979 3 Gut 0.38 protein_coding synonymous_variant LOW 975T>C Asn325Asn
M0143874 KKHNAHGA_00008 4222 3 Gut 0.38 protein_coding synonymous_variant LOW 732A>G Pro244Pro
M0143875 KKHNAHGA_00008 4738 3 Gut 0.38 protein_coding synonymous_variant LOW 216C>T His72His
M0143876 KKHNAHGA_00008 4789 3 Gut 0.38 protein_coding synonymous_variant LOW 165A>G Arg55Arg
M0143877 KKHNAHGA_00009 5012 3 Gut 0.38 protein_coding synonymous_variant LOW 78T>C Phe26Phe
M0143878 KKHNAHGA_00009 5042 3 Gut 0.38 protein_coding synonymous_variant LOW 48T>A Val16Val
M0143879 KKHNAHGA_00009 5065 3 Gut 0.38 protein_coding missense_variant MODERATE 25A>G Lys9Glu
M0143880 KKHNAHGA_00009 5078 3 Gut 0.38 protein_coding synonymous_variant LOW 12C>T Ile4Ile
M0143881 KKHNAHGA_00001 5198 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -3961C>T None
M0143882 KKHNAHGA_00001 5282 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4045A>C None
M0143883 KKHNAHGA_00001 5295 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4058G>A None
M0143884 KKHNAHGA_00001 5296 3 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -4059T>C None






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