Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1421
  Reference Plasmid   NZ_OX637966.1
  Reference Plasmid Size   74854
  Reference Plasmid GC Content   0.51
  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
M0209615 JPKMODEF_00065 50227 3 Gut 0.33 protein_coding missense_variant MODERATE 173T>A Ile58Lys
M0209616 JPKMODEF_00065 50287 4 Gut 0.44 protein_coding missense_variant MODERATE 233A>G Tyr78Cys
M0209617 JPKMODEF_00066 50977 3 Gut 0.33 protein_coding synonymous_variant LOW 504G>A Lys168Lys
M0209618 JPKMODEF_00067 52467 3 Gut 0.33 protein_coding synonymous_variant LOW 117T>G Thr39Thr
M0209619 JPKMODEF_00067 52473 3 Gut 0.33 protein_coding synonymous_variant LOW 123T>C Gly41Gly
M0209620 JPKMODEF_00067 52475 3 Gut 0.33 protein_coding missense_variant MODERATE 125A>G Glu42Gly
M0209621 JPKMODEF_00067 52489 3 Gut 0.33 protein_coding missense_variant MODERATE 139T>G Cys47Gly
M0209622 JPKMODEF_00067 52490 3 Gut 0.33 protein_coding missense_variant MODERATE 140G>C Cys47Ser
M0209623 JPKMODEF_00067 52494 3 Gut 0.33 protein_coding synonymous_variant LOW 144T>C Phe48Phe
M0209624 JPKMODEF_00043 35806 3 Gut 0.33 protein_coding missense_variant MODERATE 112G>A Val38Ile
M0209625 JPKMODEF_00046 37395 3 Gut 0.33 protein_coding synonymous_variant LOW 87T>G Gly29Gly
M0209626 JPKMODEF_00046 37644 3 Gut 0.33 protein_coding synonymous_variant LOW 336T>C Asp112Asp
M0209627 JPKMODEF_00055 42945 3 Gut 0.33 protein_coding synonymous_variant LOW 285G>T Val95Val
M0209628 JPKMODEF_00055 44100 3 Gut 0.33 protein_coding synonymous_variant LOW 1440T>C Asn480Asn
M0209629 JPKMODEF_00055 44328 3 Gut 0.33 protein_coding synonymous_variant LOW 1668C>T Arg556Arg
M0209630 JPKMODEF_00055 44335 3 Gut 0.33 protein_coding synonymous_variant LOW 1675C>T Leu559Leu
M0209631 JPKMODEF_00055 44340 3 Gut 0.33 protein_coding synonymous_variant LOW 1680G>A Ser560Ser
M0209632 JPKMODEF_00055 44904 3 Gut 0.33 protein_coding synonymous_variant LOW 2244C>T Arg748Arg






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
JPKMODEF_00039 QAY42704.1|GH23 100 7.04e-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
JPKMODEF_00011 2.A.123.2.16 100 1.7e-41 1 89 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.123 The Sweet; PQ-loop; Saliva; MtN3 (Sweet) Family