Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2249
  Reference Plasmid   1111525849755644_bin.49__k141_467320
  Reference Plasmid Size   12248
  Reference Plasmid GC Content   0.56
  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
M0031614 ICFCLLIK_00001 854 5 Skin 0.26 protein_coding synonymous_variant LOW 633A>T Gly211Gly
M0031615 ICFCLLIK_00001 1019 4 Skin 0.21 protein_coding synonymous_variant LOW 798C>G Gly266Gly
M0031616 ICFCLLIK_00001 1028 4 Skin 0.21 protein_coding synonymous_variant LOW 807T>C Gly269Gly
M0031617 ICFCLLIK_00001 1461 4 Skin 0.21 protein_coding missense_variant MODERATE 1240A>C Met414Leu
M0031618 ICFCLLIK_00001 1493 7 Skin 0.37 protein_coding synonymous_variant LOW 1272T>C Gly424Gly
M0031619 ICFCLLIK_00002 2072 13 Skin 0.68 protein_coding upstream_gene_variant MODIFIER -67G>T None
M0031620 ICFCLLIK_00002 2075 13 Skin 0.68 protein_coding upstream_gene_variant MODIFIER -64T>G None
M0031621 ICFCLLIK_00002 2097 13 Skin 0.68 protein_coding upstream_gene_variant MODIFIER -42T>C None
M0031622 ICFCLLIK_00003 4449 14 Skin 0.74 protein_coding missense_variant MODERATE 232T>A Ser78Thr
M0031623 ICFCLLIK_00001 683 3 Skin 0.16 protein_coding synonymous_variant LOW 462A>G Ser154Ser
M0031624 ICFCLLIK_00001 685 3 Skin 0.16 protein_coding missense_variant MODERATE 464C>T Ala155Val
M0031625 ICFCLLIK_00001 710 3 Skin 0.16 protein_coding synonymous_variant LOW 489C>A Arg163Arg
M0031626 ICFCLLIK_00001 722 3 Skin 0.16 protein_coding synonymous_variant LOW 501A>G Gly167Gly
M0031627 ICFCLLIK_00001 725 3 Skin 0.16 protein_coding synonymous_variant LOW 504G>A Gln168Gln
M0031628 ICFCLLIK_00001 726 3 Skin 0.16 protein_coding missense_variant MODERATE 505A>G Ile169Val
M0031629 ICFCLLIK_00001 728 3 Skin 0.16 protein_coding synonymous_variant LOW 507C>T Ile169Ile
M0031630 ICFCLLIK_00001 737 3 Skin 0.16 protein_coding synonymous_variant LOW 516C>T Asp172Asp
M0031631 ICFCLLIK_00001 755 3 Skin 0.16 protein_coding synonymous_variant LOW 534T>C Val178Val
M0031632 ICFCLLIK_00001 806 3 Skin 0.16 protein_coding synonymous_variant LOW 585G>A Ala195Ala
M0031633 ICFCLLIK_00001 813 3 Skin 0.16 protein_coding synonymous_variant LOW 592T>C Leu198Leu






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
ICFCLLIK_00002 PHI:6442 EepR 78.8 3.4e-128 1 283 1.0000 1.0000 rabbits and hares keratitis part of putative two-component regulatory system/ response regulator transcription factor 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





        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