Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1300
  Reference Plasmid   NZ_CP148580.1
  Reference Plasmid Size   127859
  Reference Plasmid GC Content   0.49
  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
M0205853 GCMNJFDC_00067 58811 4 Gut 0.08 protein_coding missense_variant MODERATE 2495T>C Phe832Ser
M0205854 GCMNJFDC_00083 75709 3 Gut 0.06 protein_coding missense_variant MODERATE 509T>C Val170Ala
M0205855 GCMNJFDC_00090 87181 3 Gut 0.06 protein_coding upstream_gene_variant MODIFIER -4907T>G None
M0205856 GCMNJFDC_00103 90270 3 Gut 0.06 protein_coding missense_variant MODERATE 277G>A Asp93Asn
M0205857 GCMNJFDC_00051 41178 3 Gut 0.06 protein_coding missense_variant MODERATE 55G>A Ala19Thr
M0205858 GCMNJFDC_00015 15297 3 Gut 0.06 protein_coding missense_variant MODERATE 29G>A Cys10Tyr






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
GCMNJFDC_00011 VFG042336 EspC 81.3 0 15 1327 0.9894 1.0061 Effector delivery system Type III secretion system secreted protein, serine protease experiment
GCMNJFDC_00015 VFG000765 Per 95.5 1e-42 1 89 1.0 1 Regulation BfpW experiment
GCMNJFDC_00011 VFG042336 EspC 81.3 0 15 1327 0.9894 1.0061 Effector delivery system Type III secretion system secreted protein, serine protease prediction
GCMNJFDC_00015 VFG000765 Per 95.5 7.5e-42 1 89 1.0 1 Regulation BfpW 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
GCMNJFDC_00102 APL26239.1|GH23 100 3.49e-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
GCMNJFDC_00011 1.B.12.4.1 81.3 0 15 1327 0.9894 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.12 The Autotransporter-1 (AT-1) Family