Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C285
  Reference Plasmid   NC_007930.1
  Reference Plasmid Size   242436
  Reference Plasmid GC Content   0.32
  Reference Plasmid Mobility Type   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
M0151264 JFBEKEPL_00084 85279 3 Gut 0.19 protein_coding synonymous_variant LOW 735A>G Gly245Gly
M0151265 JFBEKEPL_00084 85287 3 Gut 0.19 protein_coding missense_variant MODERATE 743G>A Gly248Glu
M0151266 JFBEKEPL_00084 85300 3 Gut 0.19 protein_coding synonymous_variant LOW 756T>C Gly252Gly
M0151267 JFBEKEPL_00085 85674 3 Gut 0.19 protein_coding synonymous_variant LOW 741A>G Leu247Leu
M0151268 JFBEKEPL_00085 85722 3 Gut 0.19 protein_coding synonymous_variant LOW 693A>G Leu231Leu
M0151269 JFBEKEPL_00085 85779 3 Gut 0.19 protein_coding synonymous_variant LOW 636A>G Ala212Ala
M0151270 JFBEKEPL_00085 85847 3 Gut 0.19 protein_coding missense_variant MODERATE 568A>G Ile190Val
M0151271 JFBEKEPL_00085 85962 3 Gut 0.19 protein_coding synonymous_variant LOW 453C>T Ala151Ala
M0151272 JFBEKEPL_00085 85977 3 Gut 0.19 protein_coding synonymous_variant LOW 438C>T Asp146Asp
M0151273 JFBEKEPL_00085 86052 3 Gut 0.19 protein_coding synonymous_variant LOW 363C>A Ala121Ala
M0151274 JFBEKEPL_00085 86190 3 Gut 0.19 protein_coding synonymous_variant LOW 225A>G Arg75Arg
M0151275 JFBEKEPL_00085 86226 3 Gut 0.19 protein_coding synonymous_variant LOW 189C>T Phe63Phe
M0151276 JFBEKEPL_00085 86238 3 Gut 0.19 protein_coding synonymous_variant LOW 177C>T Tyr59Tyr
M0151277 JFBEKEPL_00085 86247 3 Gut 0.19 protein_coding synonymous_variant LOW 168C>T Gly56Gly
M0151278 JFBEKEPL_00085 86271 3 Gut 0.19 protein_coding synonymous_variant LOW 144C>T Asp48Asp
M0151279 JFBEKEPL_00086 86758 3 Gut 0.19 protein_coding missense_variant MODERATE 335C>T Thr112Ile
M0151280 JFBEKEPL_00086 86759 3 Gut 0.19 protein_coding missense_variant MODERATE 334A>G Thr112Ala
M0151281 JFBEKEPL_00088 88309 3 Gut 0.19 protein_coding synonymous_variant LOW 645T>C Ser215Ser
M0151282 JFBEKEPL_00091 90830 3 Gut 0.19 protein_coding synonymous_variant LOW 63A>G Lys21Lys
M0151283 JFBEKEPL_00091 90875 3 Gut 0.19 protein_coding synonymous_variant LOW 108C>T Asp36Asp
M0151284 JFBEKEPL_00091 90890 3 Gut 0.19 protein_coding synonymous_variant LOW 123C>T Pro41Pro
M0151285 JFBEKEPL_00091 90896 3 Gut 0.19 protein_coding synonymous_variant LOW 129G>A Leu43Leu
M0151286 JFBEKEPL_00091 90938 3 Gut 0.19 protein_coding synonymous_variant LOW 171T>C Ser57Ser
M0151287 JFBEKEPL_00091 90947 3 Gut 0.19 protein_coding synonymous_variant LOW 180G>T Val60Val
M0151288 JFBEKEPL_00091 91007 3 Gut 0.19 protein_coding synonymous_variant LOW 240T>C Ala80Ala
M0151289 JFBEKEPL_00091 91091 3 Gut 0.19 protein_coding synonymous_variant LOW 324G>A Lys108Lys
M0151290 JFBEKEPL_00163 160490 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -3184T>C None
M0151291 JFBEKEPL_00168 162452 3 Gut 0.19 protein_coding missense_variant MODERATE 4T>A Cys2Ser
M0151292 JFBEKEPL_00195 194595 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -4418T>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
HJFDBEGK_00005 ADJ79749.1|GH1 100 3.63e-209 1 277 1 1
JFBEKEPL_00005 ADJ79749.1|GH1 100 3.63e-209 1 277 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
HJFDBEGK_00019 2.A.1.1.74 71.2 2.2e-171 2 417 0.9928 0.9882 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
HJFDBEGK_00245 4.A.6.1.25 80 1.3e-127 2 276 0.9964 2.0213 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
HJFDBEGK_00246 4.A.6.1.25 85.4 3.4e-119 1 247 0.9724 1.7518 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
JFBEKEPL_00019 2.A.1.1.74 71.2 2.2e-171 2 417 0.9928 0.9882 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
JFBEKEPL_00245 4.A.6.1.25 80 1.3e-127 2 276 0.9964 2.0213 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
JFBEKEPL_00246 4.A.6.1.25 85.4 3.4e-119 1 247 0.9724 1.7518 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family