Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1241
  Reference Plasmid   NZ_CP141077.1
  Reference Plasmid Size   69873
  Reference Plasmid GC Content   0.34
  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
M0200593 GBOLOFON_00062 59031 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -4674T>C None
M0200594 GBOLOFON_00007 6056 3 Gut 0.30 protein_coding missense_variant MODERATE 74G>T Ser25Ile
M0200595 GBOLOFON_00007 6165 3 Gut 0.30 protein_coding synonymous_variant LOW 183G>C Gly61Gly
M0200596 GBOLOFON_00007 6323 3 Gut 0.30 protein_coding missense_variant MODERATE 341C>T Thr114Met
M0200597 GBOLOFON_00007 6384 3 Gut 0.30 protein_coding missense_variant MODERATE 402A>C Leu134Phe
M0200598 GBOLOFON_00007 6511 3 Gut 0.30 protein_coding missense_variant MODERATE 529G>T Ala177Ser
M0200599 GBOLOFON_00008 6629 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -49T>C None
M0200600 GBOLOFON_00008 6630 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -48A>G None
M0200601 GBOLOFON_00008 6631 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -47T>A None
M0200602 GBOLOFON_00008 6660 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -18T>C None
M0200603 GBOLOFON_00009 7047 3 Gut 0.30 protein_coding synonymous_variant LOW 111A>G Gln37Gln
M0200604 GBOLOFON_00009 7201 3 Gut 0.30 protein_coding synonymous_variant LOW 265C>T Leu89Leu
M0200605 GBOLOFON_00010 7386 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -631T>G None
M0200606 GBOLOFON_00010 7475 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -542A>G 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
GBOLOFON_00032 ARO:3000375 98 3.24e-173 1 245 1.0000 0.9879 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration






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
GBOLOFON_00003 PHI:2999 EF0026 98.8 2.1e-90 1 162 1.0000 1.0000 moths nosocomial infection None increased virulence (hypervirulence)
GBOLOFON_00042 PHI:5205 HMPREF0351_10118 (WxL locusC) 100 1e-226 1 392 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
GBOLOFON_00054 PHI:5205 HMPREF0351_10118 (WxL locusC) 75.9 1.4e-132 1 295 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis 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
GBOLOFON_00022 QGI54330.1|GH24 99.8 0 1 587 0.8582 0.9983





        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
GBOLOFON_00013 3.A.7.19.1 91.2 2.6e-239 3 447 0.9955 0.7932 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
GBOLOFON_00027 9.B.91.1.1 99.4 6.9e-90 1 180 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.91 The Bacteriocin 41 Immunity Protein (Bac41IP) Family