Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1020
  Reference Plasmid   NZ_CP095924.1
  Reference Plasmid Size   275369
  Reference Plasmid GC Content   0.56
  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
M0106704 KEABBDNI_00173 114150 4 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -4411G>A None
M0106705 KEABBDNI_00181 114726 3 Skin 0.05 protein_coding synonymous_variant LOW 510T>C Ile170Ile
M0106706 KEABBDNI_00273 186603 3 Skin 0.05 protein_coding synonymous_variant LOW 267T>C Thr89Thr
M0106707 KEABBDNI_00167 112496 3 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -4988G>A None
M0106708 KEABBDNI_00214 138924 6 Skin 0.10 protein_coding synonymous_variant LOW 261G>T Val87Val
M0106709 KEABBDNI_00217 140764 3 Skin 0.05 protein_coding missense_variant MODERATE 86T>G Val29Gly
M0106710 KEABBDNI_00217 140780 3 Skin 0.05 protein_coding missense_variant MODERATE 70C>T Leu24Phe
M0106711 KEABBDNI_00195 123983 4 Skin 0.06 protein_coding missense_variant MODERATE 242C>T Ala81Val
M0106712 KEABBDNI_00201 127302 3 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -177A>G None
M0106713 KEABBDNI_00201 127438 3 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -41G>A None
M0106714 KEABBDNI_00203 128930 3 Skin 0.05 protein_coding synonymous_variant LOW 42C>T Ser14Ser
M0106715 KEABBDNI_00264 184148 3 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -1479G>A None
M0106716 KEABBDNI_00270 185067 3 Skin 0.05 protein_coding missense_variant MODERATE 125C>T Ala42Val






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
KEABBDNI_00242 Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Ethidium Bromide [class: Phenanthridine], Acriflavine [class: Acridine], Chlorhexidine [class: Biguanides], Pyronin Y [class: Xanthene], Rhodamine 6G [class: Xanthene], Methyl Viologen [class: Paraquat], Tetraphenylphosphonium (TPP) [class: Quaternary Ammonium Compounds (QACs)], 4,6-diamidino-2-phenylindole (DAPI) [class: Diamindine], Acridine Orange [class: Acridine], Sodium Dodecyl Sulfate (SDS) [class: Organo-sulfate], Sodium Deoxycholate (SDC) [class: Acid], Crystal Violet [class: Triarylmethane], Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)], Cetylpyridinium Chloride (CPC) [class: Quaternary Ammonium Compounds (QACs)], Dequalinium [class: Quaternary Ammonium Compounds (QACs)] 100 1.1e-60 1 115 1.0000 1.0000 experiment






        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
KEABBDNI_00235 ARO:3002803 100 9.75e-87 1 218 1.0000 1.0000 fluoroquinolone antibiotic quinolone resistance protein (qnr) antibiotic target protection
KEABBDNI_00241 ARO:3005334 100 1.4e-135 1 177 1.0000 1.0000 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement
KEABBDNI_00242 ARO:3005010 100 2.01e-78 1 115 1.0000 1.0000 disinfecting agents and antiseptics major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
KEABBDNI_00243 ARO:3000410 100 2.94e-199 1 279 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
KEABBDNI_00246 ARO:3008071 100 7.2e-194 1 267 1.0000 1.0000 carbapenem AFM beta-lactamase antibiotic inactivation
KEABBDNI_00247 ARO:3001205 97.5 2.28e-89 1 121 1.0000 1.0000 glycopeptide antibiotic Bleomycin resistant protein antibiotic inactivation
KEABBDNI_00256 ARO:3000410 100 2e-198 6 283 0.9823 0.9964 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement






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
KEABBDNI_00246 PHI:6347 NDM-1 86.6 2.8e-132 7 267 0.9775 0.9667 moths infection carbapenemase unaffected pathogenicity
KEABBDNI_00255 PHI:9804 int 100 3.3e-14 1 37 0.1317 1.0000 rodents gastroenteritis integrase 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
KEABBDNI_00260 2.A.53.3.1 74.5 1e-204 1 494 0.9980 0.9939 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family