Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2601
  Reference Plasmid   1111525849857134_bin.10__k141_184248
  Reference Plasmid Size   16776
  Reference Plasmid GC Content   0.63
  Reference Plasmid Mobility Type   non-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
M0048755 CJAAFOID_00001 73 5 Skin 0.20 protein_coding missense_variant MODERATE 50G>A Gly17Glu
M0048756 CJAAFOID_00013 7952 3 Skin 0.12 protein_coding synonymous_variant LOW 1501T>C Leu501Leu






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
CJAAFOID_00016 VFG000122 Alginate 75.7 5.9e-197 1 435 1.0 0.9977 Biofilm GDP-mannose 6-dehydrogenase AlgD experiment
CJAAFOID_00014 VFG015785 GacS/GacA two-component system 97.9 1.1e-101 1 193 1.0 0.9104 Regulation UvrY/SirA/GacA family response regulator transcription factor prediction
CJAAFOID_00016 VFG014753 Alginate 80.4 2.9e-203 1 435 1.0 0.9932 Biofilm GDP-mannose 6-dehydrogenase AlgD 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
CJAAFOID_00014 PHI:11010 gacA 90.7 2.2e-94 1 192 0.9948 0.8739 eudicots blight (bean) response regulator reduced virulence
CJAAFOID_00016 PHI:7031 algD 77.6 4.1e-197 1 435 1.0000 1.0000 eudicots bacterial speck (tomato) GDP mannose dehydrogenase unaffected pathogenicity






        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
CJAAFOID_00017 UTL93033.1|GT2 99.6 0 1 509 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
CJAAFOID_00012 4.F.1.1.8 84.9 1.1e-82 1 186 1.0000 1.0000 4 Group Translocators 4.F Choline/EthanolaminePhosphotransferase 1 (CEPT1) 4.F.1 The Choline/Ethanolaminephosphotransferase 1 (CEPT1) Family