Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2264
  Reference Plasmid   1111525849758568_bin.24__k141_43498
  Reference Plasmid Size   37886
  Reference Plasmid GC Content   0.55
  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
M0032029 HPDOPFDP_00011 8219 4 Skin 0.12 protein_coding synonymous_variant LOW 45A>G Ser15Ser
M0032030 HPDOPFDP_00011 8243 4 Skin 0.12 protein_coding synonymous_variant LOW 69G>A Gly23Gly
M0032031 HPDOPFDP_00011 8252 4 Skin 0.12 protein_coding synonymous_variant LOW 78T>C Ile26Ile
M0032032 HPDOPFDP_00011 8258 4 Skin 0.12 protein_coding synonymous_variant LOW 84A>G Lys28Lys
M0032033 HPDOPFDP_00011 8264 4 Skin 0.12 protein_coding synonymous_variant LOW 90G>A Gly30Gly
M0032034 HPDOPFDP_00040 34933 3 Skin 0.09 protein_coding synonymous_variant LOW 693T>C Gly231Gly
M0032035 HPDOPFDP_00042 37314 3 Skin 0.09 protein_coding synonymous_variant LOW 606A>G Ala202Ala
M0032036 HPDOPFDP_00006 3258 5 Skin 0.15 protein_coding missense_variant MODERATE 212C>T Thr71Ile






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
HPDOPFDP_00005 PHI:9997 lsrG 75 2.5e-38 1 96 0.9897 1.0000 birds meningitis (4S)-4-hydroxy-5-phosphonooxypentane-2,3-dione isomerase reduced virulence
HPDOPFDP_00006 PHI:9990 lsrK 79 2.7e-248 4 521 0.9942 0.9774 birds meningitis autoinducer-2 kinase 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
HPDOPFDP_00017 SMZ55697.1|GH3 98.4 0 1 765 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