Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C281
  Reference Plasmid   NC_006134.1
  Reference Plasmid Size   44707
  Reference Plasmid GC Content   0.30
  Reference Plasmid Mobility Type   conjugative





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
M0151105 HPGPFJHI_00002 2320 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -18T>C None
M0151106 HPGPFJHI_00002 2544 4 Gut 0.17 protein_coding synonymous_variant LOW 207G>A Gly69Gly
M0151107 HPGPFJHI_00002 2664 4 Gut 0.17 protein_coding synonymous_variant LOW 327T>C Phe109Phe
M0151108 HPGPFJHI_00002 2676 4 Gut 0.17 protein_coding synonymous_variant LOW 339T>C Ser113Ser
M0151109 HPGPFJHI_00002 2857 4 Gut 0.17 protein_coding missense_variant MODERATE 520G>A Glu174Lys
M0151110 HPGPFJHI_00002 2976 3 Gut 0.13 protein_coding synonymous_variant LOW 639G>A Gly213Gly
M0151111 HPGPFJHI_00002 2981 3 Gut 0.13 protein_coding missense_variant MODERATE 644A>G Asp215Gly
M0151112 HPGPFJHI_00002 2990 3 Gut 0.13 protein_coding missense_variant MODERATE 653C>T Pro218Leu
M0151113 HPGPFJHI_00004 3850 4 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -60A>G None
M0151114 HPGPFJHI_00004 3851 4 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -59A>C None
M0151115 HPGPFJHI_00004 3901 5 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -9C>T None
M0151116 HPGPFJHI_00004 3988 4 Gut 0.17 protein_coding synonymous_variant LOW 79T>C Leu27Leu
M0151117 HPGPFJHI_00004 4113 5 Gut 0.21 protein_coding synonymous_variant LOW 204T>C Ser68Ser
M0151118 HPGPFJHI_00004 4162 4 Gut 0.17 protein_coding synonymous_variant LOW 253C>T Leu85Leu
M0151119 HPGPFJHI_00004 4174 4 Gut 0.17 protein_coding missense_variant MODERATE 265A>G Ile89Val
M0151120 HPGPFJHI_00004 4455 5 Gut 0.21 protein_coding synonymous_variant LOW 546T>C Ile182Ile
M0151121 HPGPFJHI_00004 4524 3 Gut 0.13 protein_coding synonymous_variant LOW 615T>G Gly205Gly
M0151122 HPGPFJHI_00004 4559 5 Gut 0.21 protein_coding missense_variant MODERATE 650T>C Val217Ala
M0151123 HPGPFJHI_00004 4662 4 Gut 0.17 protein_coding synonymous_variant LOW 753C>T Tyr251Tyr
M0151124 HPGPFJHI_00004 4848 4 Gut 0.17 protein_coding synonymous_variant LOW 939C>T Ala313Ala
M0151125 HPGPFJHI_00004 4866 4 Gut 0.17 protein_coding synonymous_variant LOW 957T>C Ser319Ser
M0151126 HPGPFJHI_00004 4908 4 Gut 0.17 protein_coding synonymous_variant LOW 999C>A Ser333Ser
M0151127 HPGPFJHI_00004 3804 4 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -106A>G None
M0151128 HPGPFJHI_00004 3813 4 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -97T>C None
M0151129 HPGPFJHI_00004 4083 4 Gut 0.17 protein_coding synonymous_variant LOW 174T>C Gly58Gly
M0151130 HPGPFJHI_00004 4527 3 Gut 0.13 protein_coding synonymous_variant LOW 618C>T Phe206Phe
M0151131 HPGPFJHI_00002 2565 3 Gut 0.13 protein_coding synonymous_variant LOW 228C>T His76His
M0151132 HPGPFJHI_00004 3815 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -95A>C None
M0151133 HPGPFJHI_00004 3816 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -94A>C None
M0151134 HPGPFJHI_00004 3839 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -71C>G None
M0151135 HPGPFJHI_00004 3840 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -70G>A None
M0151136 HPGPFJHI_00004 3846 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -64A>G None
M0151137 HPGPFJHI_00004 3857 3 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -53A>C None
M0151138 HPGPFJHI_00004 4179 3 Gut 0.13 protein_coding synonymous_variant LOW 270A>G Gly90Gly
M0151139 HPGPFJHI_00004 4275 3 Gut 0.13 protein_coding synonymous_variant LOW 366T>C Asp122Asp
M0151140 HPGPFJHI_00004 4336 3 Gut 0.13 protein_coding missense_variant MODERATE 427C>T Arg143Cys
M0151141 HPGPFJHI_00004 4417 3 Gut 0.13 protein_coding synonymous_variant LOW 508C>A Arg170Arg
M0151142 HPGPFJHI_00004 4440 3 Gut 0.13 protein_coding synonymous_variant LOW 531G>A Leu177Leu
M0151143 HPGPFJHI_00004 4450 3 Gut 0.13 protein_coding missense_variant MODERATE 541T>C Phe181Leu
M0151144 HPGPFJHI_00004 4679 3 Gut 0.13 protein_coding missense_variant MODERATE 770A>G Lys257Arg
M0151145 HPGPFJHI_00004 4710 3 Gut 0.13 protein_coding synonymous_variant LOW 801G>A Glu267Glu
M0151146 HPGPFJHI_00004 4812 3 Gut 0.13 protein_coding synonymous_variant LOW 903G>A Glu301Glu
M0151147 HPGPFJHI_00004 4878 3 Gut 0.13 protein_coding synonymous_variant LOW 969G>A Leu323Leu
M0151148 HPGPFJHI_00001 1784 3 Gut 0.13 protein_coding missense_variant MODERATE 1784G>A Cys595Tyr






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
HPGPFJHI_00001 ARO:3007120 100 0 1 639 1.0000 1.0000 tetracycline antibiotic tetracycline-resistant ribosomal protection protein antibiotic target protection






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