Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1190
  Reference Plasmid   NZ_CP129608.2
  Reference Plasmid Size   35092
  Reference Plasmid GC Content   0.32
  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
M0199363 IFBJNGLM_00011 7396 4 Gut 0.44 protein_coding missense_variant MODERATE 232G>C Ala78Pro
M0199364 IFBJNGLM_00011 7397 4 Gut 0.44 protein_coding synonymous_variant LOW 231A>G Lys77Lys
M0199365 IFBJNGLM_00011 7403 4 Gut 0.44 protein_coding synonymous_variant LOW 225G>A Ser75Ser
M0199366 IFBJNGLM_00011 7404 4 Gut 0.44 protein_coding stop_gained HIGH 224C>A Ser75*
M0199367 IFBJNGLM_00011 7405 4 Gut 0.44 protein_coding missense_variant MODERATE 223T>G Ser75Ala
M0199368 IFBJNGLM_00013 8420 4 Gut 0.44 protein_coding missense_variant MODERATE 877T>G Ser293Ala
M0199369 IFBJNGLM_00013 8507 3 Gut 0.33 protein_coding missense_variant MODERATE 790A>G Arg264Gly
M0199370 IFBJNGLM_00013 8513 3 Gut 0.33 protein_coding missense_variant MODERATE 784A>G Thr262Ala
M0199371 IFBJNGLM_00013 8528 3 Gut 0.33 protein_coding missense_variant MODERATE 769G>A Glu257Lys
M0199372 IFBJNGLM_00018 13984 3 Gut 0.33 protein_coding synonymous_variant LOW 111C>T Ser37Ser
M0199373 IFBJNGLM_00018 13987 3 Gut 0.33 protein_coding synonymous_variant LOW 108C>T Ala36Ala
M0199374 IFBJNGLM_00018 13990 3 Gut 0.33 protein_coding synonymous_variant LOW 105G>A Ala35Ala
M0199375 IFBJNGLM_00019 14397 3 Gut 0.33 protein_coding missense_variant MODERATE 59T>C Val20Ala
M0199376 IFBJNGLM_00014 14515 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -4570T>C None
M0199377 IFBJNGLM_00014 14523 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -4578T>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
IFBJNGLM_00046 9.B.154.1.1 100 2.3e-87 1 167 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.154 The Putative Holin-2 (PH-2) Family