Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2960
  Reference Plasmid   DS1912041100-1_bin.6__k141_50838
  Reference Plasmid Size   17663
  Reference Plasmid GC Content   0.66
  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
M0068537 FFHJMBEM_00006 9293 3 Skin 0.38 protein_coding synonymous_variant LOW 66C>T Ile22Ile
M0068538 FFHJMBEM_00010 12725 5 Skin 0.63 protein_coding synonymous_variant LOW 840C>G Gly280Gly
M0068539 FFHJMBEM_00011 14904 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -366G>T None
M0068540 FFHJMBEM_00011 15172 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -98G>T None
M0068541 FFHJMBEM_00011 15174 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -96G>C None
M0068542 FFHJMBEM_00011 15175 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -95T>G None
M0068543 FFHJMBEM_00011 15180 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -90A>G None
M0068544 FFHJMBEM_00011 15190 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -80G>C None
M0068545 FFHJMBEM_00011 15191 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -79C>G None
M0068546 FFHJMBEM_00011 15208 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -62C>T None
M0068547 FFHJMBEM_00011 15232 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -38A>G None
M0068548 FFHJMBEM_00011 15233 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -37G>A None
M0068549 FFHJMBEM_00011 15383 3 Skin 0.38 protein_coding synonymous_variant LOW 114T>C Asp38Asp
M0068550 FFHJMBEM_00011 15419 3 Skin 0.38 protein_coding synonymous_variant LOW 150T>C Tyr50Tyr
M0068551 FFHJMBEM_00011 15534 3 Skin 0.38 protein_coding missense_variant MODERATE 265A>G Lys89Glu
M0068552 FFHJMBEM_00011 15600 3 Skin 0.38 protein_coding missense_variant MODERATE 331C>G Arg111Gly
M0068553 FFHJMBEM_00005 11677 3 Skin 0.38 protein_coding upstream_gene_variant MODIFIER -3007G>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
FFHJMBEM_00005 PHI:9001 PXO_RS20355 72 1.3e-146 1 368 0.9866 0.9634 monocots bacterial leaf blight response regulator 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





        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