Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1389
  Reference Plasmid   NZ_MW077914.1
  Reference Plasmid Size   74235
  Reference Plasmid GC Content   0.52
  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
M0208839 GCDBKGCO_00002 1099 4 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -673T>G None
M0208840 GCDBKGCO_00002 1107 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -665C>T None
M0208841 GCDBKGCO_00002 1108 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -664G>C None
M0208842 GCDBKGCO_00002 1251 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -521T>G None
M0208843 GCDBKGCO_00002 1261 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -511G>A None
M0208844 GCDBKGCO_00002 1282 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -490C>T None
M0208845 GCDBKGCO_00002 1370 4 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -402G>A None
M0208846 GCDBKGCO_00002 1417 4 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -355T>C None
M0208847 GCDBKGCO_00002 1449 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -323T>A None
M0208848 GCDBKGCO_00002 1450 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -322C>T None
M0208849 GCDBKGCO_00002 1452 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -320C>G None
M0208850 GCDBKGCO_00086 73509 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -168A>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
GCDBKGCO_00006 ARO:3002660 99.3 4.37e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) antibiotic inactivation
GCDBKGCO_00007 ARO:3002639 99.6 5.98e-202 1 267 1.0000 1.0000 aminoglycoside antibiotic APH(3'') antibiotic inactivation
GCDBKGCO_00008 ARO:3000412 100 4.11e-186 1 271 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
GCDBKGCO_00012 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase antibiotic inactivation
GCDBKGCO_00014 ARO:3002863 100 3.34e-121 1 169 1.0000 1.0000 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement






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
GCDBKGCO_00018 PHI:3113 stbA 98.8 2.5e-183 1 326 1.0000 1.0000 rodents neonatal meningitis stability protein for the plasmid reduced virulence






        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
GCDBKGCO_00045 AKA93601.1|GH23 100 1e-123 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