Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C167
  Reference Plasmid   CP099088.1
  Reference Plasmid Size   96356
  Reference Plasmid GC Content   0.50
  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
M0146332 IJCGPNHA_00066 59229 3 Gut 1.00 protein_coding missense_variant MODERATE 343G>A Gly115Arg
M0146333 IJCGPNHA_00066 59259 3 Gut 1.00 protein_coding missense_variant MODERATE 313T>C Tyr105His
M0146334 IJCGPNHA_00066 59334 3 Gut 1.00 protein_coding missense_variant MODERATE 238G>A Val80Met
M0146335 IJCGPNHA_00066 59340 3 Gut 1.00 protein_coding missense_variant MODERATE 232G>A Gly78Arg
M0146336 IJCGPNHA_00066 59343 3 Gut 1.00 protein_coding missense_variant MODERATE 229T>A Tyr77Asn
M0146337 IJCGPNHA_00066 59345 3 Gut 1.00 protein_coding missense_variant MODERATE 227C>T Ser76Leu
M0146338 IJCGPNHA_00066 59348 3 Gut 1.00 protein_coding missense_variant MODERATE 224A>G Asp75Gly
M0146339 IJCGPNHA_00066 59452 3 Gut 1.00 protein_coding synonymous_variant LOW 120G>A Pro40Pro
M0146340 IJCGPNHA_00066 59480 3 Gut 1.00 protein_coding missense_variant MODERATE 92A>G Asp31Gly
M0146341 IJCGPNHA_00068 60277 3 Gut 1.00 protein_coding missense_variant MODERATE 243C>A Asn81Lys






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
IJCGPNHA_00005 VFG036043 AatA, AIDA-I type 97.2 0 1 1165 1.0 1 Adherence autotransporter outer membrane beta-barrel domain-containing protein prediction
IJCGPNHA_00019 VFG042563 Adhesive fimbriae 92.3 0 1 804 1.0 1 Adherence FedC protein prediction
IJCGPNHA_00020 VFG042529 Adhesive factor/rabbit 1 (AF/R1) pili 85.2 1.5e-113 1 229 0.9957 0.9957 Adherence chaperonin precursor prediction







        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
IJCGPNHA_00069 AKO58984.1|GH23 100 1.73e-124 1 169 1 1





        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
IJCGPNHA_00019 1.B.11.1.2 86 0 1 804 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.11 The Outer Membrane Fimbrial Usher Porin (FUP) Family
IJCGPNHA_00111 1.E.53.1.11 100 1.1e-21 1 49 1.0000 0.7206 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family