Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C371
  Reference Plasmid   NZ_AP023307.1
  Reference Plasmid Size   131843
  Reference Plasmid GC Content   0.52
  Reference Plasmid Mobility Type   conjugative





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
M0086869 JFGLBHGK_00018 18440 3 Skin 0.30 protein_coding synonymous_variant LOW 639A>T Ala213Ala
M0086870 JFGLBHGK_00018 18446 3 Skin 0.30 protein_coding synonymous_variant LOW 633A>C Gly211Gly
M0086871 JFGLBHGK_00002 4466 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -2363C>T None
M0086872 JFGLBHGK_00002 4490 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -2387C>T None
M0086873 JFGLBHGK_00002 4523 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -2420C>T None
M0086874 JFGLBHGK_00002 4559 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -2456G>A None
M0086875 JFGLBHGK_00006 4853 3 Skin 0.30 protein_coding synonymous_variant LOW 273A>T Val91Val
M0086876 JFGLBHGK_00006 4916 3 Skin 0.30 protein_coding synonymous_variant LOW 336G>A Leu112Leu
M0086877 JFGLBHGK_00006 4937 3 Skin 0.30 protein_coding missense_variant MODERATE 357A>G Ile119Met
M0086878 JFGLBHGK_00006 4940 3 Skin 0.30 protein_coding synonymous_variant LOW 360T>G Gly120Gly
M0086879 JFGLBHGK_00006 5030 3 Skin 0.30 protein_coding synonymous_variant LOW 450G>C Ala150Ala
M0086880 JFGLBHGK_00006 5110 3 Skin 0.30 protein_coding missense_variant MODERATE 530T>C Met177Thr
M0086881 JFGLBHGK_00006 5120 3 Skin 0.30 protein_coding synonymous_variant LOW 540A>G Glu180Glu
M0086882 JFGLBHGK_00006 5126 3 Skin 0.30 protein_coding synonymous_variant LOW 546T>C Asn182Asn
M0086883 JFGLBHGK_00006 5130 3 Skin 0.30 protein_coding missense_variant MODERATE 550T>G Tyr184Asp
M0086884 JFGLBHGK_00006 5138 3 Skin 0.30 protein_coding synonymous_variant LOW 558G>A Leu186Leu
M0086885 JFGLBHGK_00006 5149 3 Skin 0.30 protein_coding missense_variant MODERATE 569C>T Thr190Met
M0086886 JFGLBHGK_00006 5153 3 Skin 0.30 protein_coding synonymous_variant LOW 573T>C Ser191Ser
M0086887 JFGLBHGK_00006 5156 3 Skin 0.30 protein_coding synonymous_variant LOW 576G>T Gly192Gly
M0086888 JFGLBHGK_00006 5161 3 Skin 0.30 protein_coding missense_variant MODERATE 581T>C Leu194Ser
M0086889 JFGLBHGK_00006 5165 3 Skin 0.30 protein_coding synonymous_variant LOW 585G>A Leu195Leu
M0086890 JFGLBHGK_00006 5174 3 Skin 0.30 protein_coding synonymous_variant LOW 594A>G Leu198Leu
M0086891 JFGLBHGK_00006 5317 3 Skin 0.30 protein_coding missense_variant MODERATE 737A>C Gln246Pro
M0086892 JFGLBHGK_00006 5336 3 Skin 0.30 protein_coding missense_variant MODERATE 756A>T Lys252Asn
M0086893 JFGLBHGK_00006 5351 3 Skin 0.30 protein_coding synonymous_variant LOW 771G>A Glu257Glu
M0086894 JFGLBHGK_00006 5355 3 Skin 0.30 protein_coding missense_variant MODERATE 775T>A Ser259Thr
M0086895 JFGLBHGK_00006 5357 3 Skin 0.30 protein_coding synonymous_variant LOW 777G>A Ser259Ser
M0086896 JFGLBHGK_00006 5358 3 Skin 0.30 protein_coding missense_variant MODERATE 778G>A Glu260Lys
M0086897 JFGLBHGK_00006 5369 3 Skin 0.30 protein_coding synonymous_variant LOW 789G>A Gln263Gln
M0086898 JFGLBHGK_00006 5387 3 Skin 0.30 protein_coding synonymous_variant LOW 807T>C Arg269Arg
M0086899 JFGLBHGK_00006 5399 3 Skin 0.30 protein_coding synonymous_variant LOW 819C>A Gly273Gly
M0086900 JFGLBHGK_00006 5405 3 Skin 0.30 protein_coding synonymous_variant LOW 825G>A Leu275Leu
M0086901 JFGLBHGK_00006 5411 3 Skin 0.30 protein_coding synonymous_variant LOW 831G>A Leu277Leu
M0086902 JFGLBHGK_00006 5427 3 Skin 0.30 protein_coding missense_variant MODERATE 847A>G Ile283Val
M0086903 JFGLBHGK_00006 5432 3 Skin 0.30 protein_coding synonymous_variant LOW 852G>A Ser284Ser
M0086904 JFGLBHGK_00006 5438 3 Skin 0.30 protein_coding synonymous_variant LOW 858G>A Lys286Lys
M0086905 JFGLBHGK_00006 5451 3 Skin 0.30 protein_coding missense_variant MODERATE 871A>G Ile291Val
M0086906 JFGLBHGK_00006 6089 3 Skin 0.30 protein_coding synonymous_variant LOW 1509C>T Tyr503Tyr
M0086907 JFGLBHGK_00006 6092 3 Skin 0.30 protein_coding synonymous_variant LOW 1512T>C Gly504Gly
M0086908 JFGLBHGK_00006 6116 3 Skin 0.30 protein_coding synonymous_variant LOW 1536T>C Thr512Thr
M0086909 JFGLBHGK_00006 6138 3 Skin 0.30 protein_coding missense_variant MODERATE 1558A>G Thr520Ala
M0086910 JFGLBHGK_00006 6150 3 Skin 0.30 protein_coding synonymous_variant LOW 1570C>T Leu524Leu
M0086911 JFGLBHGK_00006 6155 3 Skin 0.30 protein_coding synonymous_variant LOW 1575G>A Glu525Glu
M0086912 JFGLBHGK_00006 6160 3 Skin 0.30 protein_coding missense_variant MODERATE 1580C>T Ala527Val
M0086913 JFGLBHGK_00006 6164 3 Skin 0.30 protein_coding missense_variant MODERATE 1584T>A Phe528Leu
M0086914 JFGLBHGK_00006 6166 3 Skin 0.30 protein_coding missense_variant MODERATE 1586G>A Arg529Lys
M0086915 JFGLBHGK_00002 6555 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -4452G>A None






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
JFGLBHGK_00008 Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)] 93.6 4.2e-54 1 110 1.0000 1.0000 experiment
OOLJHHJJ_00008 Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)] 93.6 4.2e-54 1 110 1.0000 1.0000 experiment
JFGLBHGK_00008 Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)] 100 1.7e-53 1 110 1.0000 1.0000 prediction
OOLJHHJJ_00008 Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)] 100 1.7e-53 1 110 1.0000 1.0000 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
JFGLBHGK_00006 ARO:3000186 96.1 0 1 639 1.0000 1.0000 tetracycline antibiotic tetracycline-resistant ribosomal protection protein antibiotic target protection
JFGLBHGK_00008 ARO:3005098 93.6 1.69e-70 1 110 1.0000 1.0000 disinfecting agents and antiseptics small multidrug resistance (SMR) antibiotic efflux pump antibiotic efflux
JFGLBHGK_00009 ARO:3002601 99.6 1.33e-186 1 259 1.0000 0.9848 aminoglycoside antibiotic ANT(3'') antibiotic inactivation
JFGLBHGK_00010 ARO:3002693 99.8 7.16e-298 1 419 1.0000 1.0000 phenicol antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
JFGLBHGK_00011 ARO:3002602 100 5.68e-187 1 259 1.0000 1.0000 aminoglycoside antibiotic ANT(3'') antibiotic inactivation
JFGLBHGK_00012 ARO:3002858 100 4.78e-119 1 165 1.0000 1.0000 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement
JFGLBHGK_00021 ARO:3002705 99.5 1.13e-275 1 404 1.0000 1.0000 phenicol antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
JFGLBHGK_00025 ARO:3000412 100 7.82e-186 17 287 0.9443 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
JFGLBHGK_00032 ARO:3000165 99.5 1.02e-277 1 390 0.9774 0.9198 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
JFGLBHGK_00042 ARO:3000413 100 3.83e-187 1 263 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
JFGLBHGK_00043 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase antibiotic inactivation
JFGLBHGK_00048 ARO:3004623 100 4.76e-213 1 286 1.0000 1.0000 aminoglycoside antibiotic AAC(3) antibiotic inactivation
JFGLBHGK_00052 ARO:3004139 100 0 1 541 1.0000 1.0000 peptide antibiotic MCR phosphoethanolamine transferase antibiotic target alteration
OOLJHHJJ_00006 ARO:3000186 96.1 0 1 639 1.0000 1.0000 tetracycline antibiotic tetracycline-resistant ribosomal protection protein antibiotic target protection
OOLJHHJJ_00008 ARO:3005098 93.6 1.69e-70 1 110 1.0000 1.0000 disinfecting agents and antiseptics small multidrug resistance (SMR) antibiotic efflux pump antibiotic efflux
OOLJHHJJ_00009 ARO:3002601 99.6 1.33e-186 1 259 1.0000 0.9848 aminoglycoside antibiotic ANT(3'') antibiotic inactivation
OOLJHHJJ_00010 ARO:3002693 99.8 7.16e-298 1 419 1.0000 1.0000 phenicol antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
OOLJHHJJ_00011 ARO:3002602 100 5.68e-187 1 259 1.0000 1.0000 aminoglycoside antibiotic ANT(3'') antibiotic inactivation
OOLJHHJJ_00012 ARO:3002858 100 4.78e-119 1 165 1.0000 1.0000 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement
OOLJHHJJ_00021 ARO:3002705 99.5 1.13e-275 1 404 1.0000 1.0000 phenicol antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
OOLJHHJJ_00025 ARO:3000412 100 7.82e-186 17 287 0.9443 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
OOLJHHJJ_00032 ARO:3000165 99.5 1.02e-277 1 390 0.9774 0.9198 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
OOLJHHJJ_00042 ARO:3000413 100 3.83e-187 1 263 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
OOLJHHJJ_00043 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase antibiotic inactivation
OOLJHHJJ_00048 ARO:3004623 100 4.76e-213 1 286 1.0000 1.0000 aminoglycoside antibiotic AAC(3) antibiotic inactivation
OOLJHHJJ_00052 ARO:3004139 100 0 1 541 1.0000 1.0000 peptide antibiotic MCR phosphoethanolamine transferase antibiotic target alteration






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
JFGLBHGK_00013 PHI:9804 int 97.3 1.2e-13 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence
JFGLBHGK_00052 PHI:11670 mcr-3 100 0 1 541 1.0000 0.9695 moths infection phosphoethanolamine--lipid A transferase increased virulence (hypervirulence)
OOLJHHJJ_00013 PHI:9804 int 97.3 1.2e-13 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence
OOLJHHJJ_00052 PHI:11670 mcr-3 100 0 1 541 1.0000 0.9695 moths infection phosphoethanolamine--lipid A transferase increased virulence (hypervirulence)






        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
JFGLBHGK_00098 QAZ75040.1|GH23 100 4.96e-124 1 169 1 1
OOLJHHJJ_00098 QAZ75040.1|GH23 100 4.96e-124 1 169 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
JFGLBHGK_00010 2.A.1.2.3 100 1e-232 1 419 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
JFGLBHGK_00021 2.A.1.2.110 98 1e-213 1 404 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
JFGLBHGK_00032 2.A.1.2.4 99.7 5.2e-223 1 399 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
JFGLBHGK_00033 2.A.7.3.67 100 1.8e-159 1 294 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.7 The Drug/Metabolite Transporter (DMT) Superfamily
JFGLBHGK_00064 1.E.53.1.11 100 1.1e-21 1 49 1.0000 0.7206 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
OOLJHHJJ_00010 2.A.1.2.3 100 1e-232 1 419 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
OOLJHHJJ_00021 2.A.1.2.110 98 1e-213 1 404 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
OOLJHHJJ_00032 2.A.1.2.4 99.7 5.2e-223 1 399 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)
OOLJHHJJ_00033 2.A.7.3.67 100 1.8e-159 1 294 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.7 The Drug/Metabolite Transporter (DMT) Superfamily
OOLJHHJJ_00064 1.E.53.1.11 100 1.1e-21 1 49 1.0000 0.7206 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family