Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3031
  Reference Plasmid   DSKIN0049-1_bin.24__k141_117577
  Reference Plasmid Size   32893
  Reference Plasmid GC Content   0.61
  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
M0069980 IAMLCHOD_00027 27663 5 Skin 0.63 protein_coding synonymous_variant LOW 393T>C Tyr131Tyr
M0069981 IAMLCHOD_00027 27687 4 Skin 0.50 protein_coding synonymous_variant LOW 369C>T Tyr123Tyr
M0069982 IAMLCHOD_00027 27697 4 Skin 0.50 protein_coding missense_variant MODERATE 359A>G Gln120Arg
M0069983 IAMLCHOD_00027 27708 5 Skin 0.63 protein_coding synonymous_variant LOW 348C>G Ala116Ala
M0069984 IAMLCHOD_00027 27717 4 Skin 0.50 protein_coding synonymous_variant LOW 339C>T His113His
M0069985 IAMLCHOD_00027 27728 4 Skin 0.50 protein_coding missense_variant MODERATE 328C>G Leu110Val
M0069986 IAMLCHOD_00027 27729 4 Skin 0.50 protein_coding missense_variant MODERATE 327C>A Asp109Glu
M0069987 IAMLCHOD_00029 29297 5 Skin 0.63 protein_coding missense_variant MODERATE 1010G>T Gly337Val
M0069988 IAMLCHOD_00001 96 3 Skin 0.38 protein_coding missense_variant MODERATE 39C>A His13Gln
M0069989 IAMLCHOD_00001 105 3 Skin 0.38 protein_coding synonymous_variant LOW 48G>C Pro16Pro
M0069990 IAMLCHOD_00001 108 3 Skin 0.38 protein_coding synonymous_variant LOW 51A>G Ser17Ser
M0069991 IAMLCHOD_00001 109 3 Skin 0.38 protein_coding missense_variant MODERATE 52C>G Pro18Ala
M0069992 IAMLCHOD_00001 112 3 Skin 0.38 protein_coding missense_variant MODERATE 55A>G Lys19Glu
M0069993 IAMLCHOD_00001 113 3 Skin 0.38 protein_coding missense_variant MODERATE 56A>C Lys19Thr
M0069994 IAMLCHOD_00001 114 3 Skin 0.38 protein_coding missense_variant MODERATE 57A>T Lys19Asn
M0069995 IAMLCHOD_00001 117 3 Skin 0.38 protein_coding synonymous_variant LOW 60T>G Pro20Pro
M0069996 IAMLCHOD_00001 120 3 Skin 0.38 protein_coding synonymous_variant LOW 63G>C Ala21Ala
M0069997 IAMLCHOD_00001 129 3 Skin 0.38 protein_coding synonymous_variant LOW 72C>G Pro24Pro






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
IAMLCHOD_00029 PHI:4717 PA2414 71.1 1.2e-185 11 435 0.9748 0.9681 nematodes nosocomial infection L-sorbosone dehydrogenase 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