Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C594
  Reference Plasmid   NZ_CP035512.1
  Reference Plasmid Size   349143
  Reference Plasmid GC Content   0.65
  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
M0095637 CJKEKCLG_00201 229375 3 Skin 0.04 protein_coding missense_variant MODERATE 302T>A Val101Asp
M0095638 CJKEKCLG_00095 109984 3 Skin 0.04 protein_coding synonymous_variant LOW 72T>C Leu24Leu
M0095639 CJKEKCLG_00004 4570 3 Skin 0.04 protein_coding synonymous_variant LOW 1035A>G Leu345Leu
M0095640 CJKEKCLG_00311 347827 3 Skin 0.04 protein_coding missense_variant MODERATE 1046G>T Gly349Val
M0095641 CJKEKCLG_00124 140565 3 Skin 0.04 protein_coding synonymous_variant LOW 492C>T Thr164Thr






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
CJKEKCLG_00305 VFG013051 Ferrous iron transport 72.9 1.3e-108 1 280 0.9964 0.9825 Nutritional/Metabolic factor iron/manganese ABC transporter permease subunit SitC prediction







        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
CJKEKCLG_00305 Manganese (Mn), Iron (Fe), Hydrogen Peroxide (H2O2) [class: Peroxides] 74.8 2.5e-111 1 278 0.9893 0.9720 experiment
CJKEKCLG_00224 Nickel (Ni) 100 1.7e-84 1 164 1.0000 1.0000 prediction
CJKEKCLG_00304 Manganese (Mn), Iron (Fe), Hydrogen Peroxide (H2O2) [class: Peroxides] 70.5 1.2e-87 5 237 0.6464 0.8571 prediction
CJKEKCLG_00305 Iron (Fe), Manganese (Mn) 79.1 2.9e-113 4 280 0.9858 0.9685 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
CJKEKCLG_00305 PHI:10084 STM14_RS15355 74.8 4.2e-110 1 278 0.9893 0.9720 eudicots infection iron ABC transporter permease unaffected pathogenicity






        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
CJKEKCLG_00047 QBJ25805.1|GH23 100 1.57e-169 1 236 1 1
CJKEKCLG_00159 QBJ25899.1|GT4 100 2.30000000001574e-313 1 423 1 1
CJKEKCLG_00160 QBJ25900.1|GT2 100 1.97e-254 1 345 1 1
CJKEKCLG_00165 QBJ25905.1|GT4 100 8.6e-271 1 366 1 1
CJKEKCLG_00167 QBJ26050.1|GT2 100 2.23e-228 1 313 1 1
CJKEKCLG_00169 QBJ25907.1|GT4 100 5.32e-263 1 362 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
CJKEKCLG_00143 2.A.28.3.3 70.2 2.3e-112 1 321 0.9938 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.28 The Bile Acid:Na+ Symporter (BASS) Family
CJKEKCLG_00296 3.A.1.2.7 82.7 6.6e-113 10 257 0.9323 0.7273 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
CJKEKCLG_00298 3.A.1.2.7 71.3 7e-131 9 348 0.9770 0.9971 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
CJKEKCLG_00304 3.A.1.15.9 70.9 1.3e-90 3 238 0.6519 0.7874 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
CJKEKCLG_00305 3.A.1.15.9 77.9 1.1e-113 1 280 0.9964 0.9302 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily