Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3090
  Reference Plasmid   MET0111_bin.2__k81_62567
  Reference Plasmid Size   2843
  Reference Plasmid GC Content   0.31
  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
M0074248 NJNDDONK_00003 2063 6 Skin 0.43 protein_coding synonymous_variant LOW 498A>C Ile166Ile
M0074249 NJNDDONK_00004 2593 4 Skin 0.29 protein_coding missense_variant MODERATE 67T>G Ser23Ala
M0074250 NJNDDONK_00001 305 4 Skin 0.29 protein_coding synonymous_variant LOW 285A>T Val95Val
M0074251 NJNDDONK_00001 450 4 Skin 0.29 protein_coding missense_variant MODERATE 430G>A Ala144Thr
M0074252 NJNDDONK_00001 482 5 Skin 0.36 protein_coding missense_variant MODERATE 462A>T Lys154Asn
M0074253 NJNDDONK_00001 603 5 Skin 0.36 protein_coding missense_variant MODERATE 583G>A Val195Met
M0074254 NJNDDONK_00001 605 5 Skin 0.36 protein_coding synonymous_variant LOW 585G>T Val195Val
M0074255 NJNDDONK_00001 614 5 Skin 0.36 protein_coding synonymous_variant LOW 594T>C Ile198Ile
M0074256 NJNDDONK_00001 647 5 Skin 0.36 protein_coding synonymous_variant LOW 627A>T Thr209Thr
M0074257 NJNDDONK_00001 656 5 Skin 0.36 protein_coding synonymous_variant LOW 636G>A Glu212Glu
M0074258 NJNDDONK_00001 685 5 Skin 0.36 protein_coding missense_variant MODERATE 665A>G Asp222Gly
M0074259 NJNDDONK_00001 686 5 Skin 0.36 protein_coding synonymous_variant LOW 666C>T Asp222Asp
M0074260 NJNDDONK_00001 1133 6 Skin 0.43 protein_coding synonymous_variant LOW 1113C>A Ala371Ala
M0074261 NJNDDONK_00002 1395 5 Skin 0.36 protein_coding synonymous_variant LOW 33T>C Tyr11Tyr
M0074262 NJNDDONK_00002 1434 5 Skin 0.36 protein_coding synonymous_variant LOW 72C>G Val24Val
M0074263 NJNDDONK_00002 1515 5 Skin 0.36 protein_coding synonymous_variant LOW 153T>C Gly51Gly






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
NJNDDONK_00002 PHI:6581 VraH 88.9 2.7e-25 1 63 1.0000 1.0000 moths skin infection; food poisoning; respiratory disease involved in gallidermin and daptomycin resistance 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
NJNDDONK_00001 3.A.1.134.11 98.8 6.9e-218 1 416 1.0000 6.6032 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
NJNDDONK_00002 3.A.1.134.11 87.3 1.4e-24 1 63 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily