Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2112
  Reference Plasmid   1111525849742984_bin.17__k141_232941
  Reference Plasmid Size   8805
  Reference Plasmid GC Content   0.52
  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
M0025317 OMHAMIDF_00001 393 4 Skin 0.18 protein_coding splice_region_variant&stop_retained_variant LOW 303A>G Ter101Ter
M0025318 OMHAMIDF_00003 396 4 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -465C>T None
M0025319 OMHAMIDF_00003 400 4 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -461T>A None
M0025320 OMHAMIDF_00003 402 4 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -459G>A None
M0025321 OMHAMIDF_00003 419 4 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -442T>G None
M0025322 OMHAMIDF_00003 424 4 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -437T>G None
M0025323 OMHAMIDF_00002 462 4 Skin 0.18 protein_coding synonymous_variant LOW 75C>T Thr25Thr
M0025324 OMHAMIDF_00003 1197 6 Skin 0.27 protein_coding missense_variant MODERATE 337A>C Lys113Gln
M0025325 OMHAMIDF_00004 2291 8 Skin 0.36 protein_coding synonymous_variant LOW 537A>G Ala179Ala
M0025326 OMHAMIDF_00006 4908 8 Skin 0.36 protein_coding synonymous_variant LOW 408G>A Gln136Gln
M0025327 OMHAMIDF_00006 4938 8 Skin 0.36 protein_coding synonymous_variant LOW 438T>C Thr146Thr
M0025328 OMHAMIDF_00006 4959 8 Skin 0.36 protein_coding missense_variant MODERATE 459T>G Asp153Glu
M0025329 OMHAMIDF_00004 6907 5 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -4080G>A None
M0025330 OMHAMIDF_00009 7528 4 Skin 0.18 protein_coding missense_variant MODERATE 587T>C Val196Ala
M0025331 OMHAMIDF_00009 7988 3 Skin 0.14 protein_coding synonymous_variant LOW 1047C>G Pro349Pro






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
OMHAMIDF_00009 Tetraphenylphosphonium (TPP) [class: Quaternary Ammonium Compounds (QACs)], Sodium Deoxycholate (SDC) [class: Acid], Ethidium Bromide [class: Phenanthridine], Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Acriflavine [class: Acridine] 75.5 4.5e-195 1 458 1.0000 1.0022 experiment
OMHAMIDF_00009 Tetraphenylphosphonium (TPP) [class: Quaternary Ammonium Compounds (QACs)], Sodium Deoxycholate (SDC) [class: Acid], Ethidium Bromide [class: Phenanthridine], Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Acriflavine [class: Acridine] 77.5 2.6e-199 1 458 1.0000 1.0022 prediction






        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






        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
OMHAMIDF_00009 2.A.66.1.3 75.5 1.7e-193 1 458 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.66 The Multidrug/Oligosaccharidyl-lipid/Polysaccharide (MOP) Flippase Superfamily