Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C245
  Reference Plasmid   LR890577.1
  Reference Plasmid Size   92280
  Reference Plasmid GC Content   0.50
  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
M0149567 DFPBNBGH_00046 34633 3 Gut 1.00 protein_coding synonymous_variant LOW 2067A>G Arg689Arg
M0149568 DFPBNBGH_00046 34730 3 Gut 1.00 protein_coding synonymous_variant LOW 2164T>C Leu722Leu
M0149569 DFPBNBGH_00046 34798 3 Gut 1.00 protein_coding synonymous_variant LOW 2232C>T Val744Val
M0149570 DFPBNBGH_00046 34825 3 Gut 1.00 protein_coding synonymous_variant LOW 2259A>G Pro753Pro
M0149571 DFPBNBGH_00046 34909 3 Gut 1.00 protein_coding missense_variant MODERATE 2343G>T Leu781Phe
M0149572 DFPBNBGH_00046 35029 3 Gut 1.00 protein_coding missense_variant MODERATE 2463T>G Phe821Leu
M0149573 DFPBNBGH_00047 35384 3 Gut 1.00 protein_coding synonymous_variant LOW 93T>C Arg31Arg
M0149574 DFPBNBGH_00047 35798 3 Gut 1.00 protein_coding synonymous_variant LOW 507T>C Leu169Leu
M0149575 DFPBNBGH_00044 35873 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -3883T>A None
M0149576 DFPBNBGH_00048 36438 3 Gut 1.00 protein_coding missense_variant MODERATE 1666A>G Ile556Val
M0149577 DFPBNBGH_00048 36648 3 Gut 1.00 protein_coding missense_variant MODERATE 1456C>T His486Tyr
M0149578 DFPBNBGH_00048 37000 3 Gut 1.00 protein_coding synonymous_variant LOW 1104T>C Ala368Ala
M0149579 DFPBNBGH_00048 37216 3 Gut 1.00 protein_coding synonymous_variant LOW 888T>A Leu296Leu
M0149580 DFPBNBGH_00049 38565 3 Gut 1.00 protein_coding synonymous_variant LOW 792A>G Arg264Arg
M0149581 DFPBNBGH_00049 38592 3 Gut 1.00 protein_coding synonymous_variant LOW 765C>G Leu255Leu
M0149582 DFPBNBGH_00049 38828 3 Gut 1.00 protein_coding missense_variant MODERATE 529C>T Arg177Cys
M0149583 DFPBNBGH_00049 38958 3 Gut 1.00 protein_coding synonymous_variant LOW 399G>A Ser133Ser
M0149584 DFPBNBGH_00049 39114 3 Gut 1.00 protein_coding synonymous_variant LOW 243G>A Leu81Leu






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






        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
DFPBNBGH_00087 AHF22950.1|GH23 100 5.89e-138 1 186 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
DFPBNBGH_00053 3.A.7.10.1 98.4 0 1 763 1.0000 7.9479 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00054 3.A.7.10.1 99.7 1.2e-207 1 356 1.0000 3.7083 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00055 3.A.7.10.1 99.8 7.1e-244 1 402 1.0000 4.1875 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00061 9.B.40.1.2 86.9 0 1 722 1.0000 0.9691 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.40 The DotA/TraY (DotA/TraY) Family
DFPBNBGH_00072 3.A.7.10.1 99.7 1.4e-184 1 327 1.0000 3.4063 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00073 3.A.7.10.1 99.1 7.4e-129 1 230 1.0000 2.3958 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00074 3.A.7.10.1 100 1.3e-57 1 115 1.0000 1.1979 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00077 3.A.7.10.1 99 4.6e-56 1 96 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00078 3.A.7.10.1 97.9 3.2e-217 1 382 1.0000 3.9792 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00079 3.A.7.10.1 98.9 1.1e-158 1 272 1.0000 2.8333 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DFPBNBGH_00080 3.A.7.10.1 100 6e-87 1 152 1.0000 1.5833 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family