Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C844
  Reference Plasmid   NZ_CP069867.1
  Reference Plasmid Size   81604
  Reference Plasmid GC Content   0.53
  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
M0184585 PLHGFPNF_00018 13825 3 Gut 0.19 protein_coding synonymous_variant LOW 159T>C Asn53Asn
M0184586 PLHGFPNF_00019 14428 3 Gut 0.19 protein_coding missense_variant MODERATE 1973A>G Gln658Arg
M0184587 PLHGFPNF_00020 17242 3 Gut 0.19 protein_coding missense_variant MODERATE 264G>T Glu88Asp
M0184588 PLHGFPNF_00020 17428 3 Gut 0.19 protein_coding synonymous_variant LOW 78A>G Glu26Glu
M0184589 PLHGFPNF_00013 9456 3 Gut 0.19 protein_coding synonymous_variant LOW 60A>G Ser20Ser
M0184590 PLHGFPNF_00071 70799 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2921G>T None
M0184591 PLHGFPNF_00071 71880 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -4002G>A None
M0184592 PLHGFPNF_00071 71954 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -4076G>A None
M0184593 PLHGFPNF_00071 72020 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -4142C>T None
M0184594 PLHGFPNF_00071 72028 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -4150C>T None
M0184595 PLHGFPNF_00082 76699 3 Gut 0.19 protein_coding missense_variant MODERATE 57A>T Glu19Asp
M0184596 PLHGFPNF_00087 79652 3 Gut 0.19 protein_coding missense_variant MODERATE 457C>T Arg153Cys
M0184597 PLHGFPNF_00001 531 3 Gut 0.19 protein_coding missense_variant MODERATE 459T>G Ile153Met
M0184598 PLHGFPNF_00001 532 3 Gut 0.19 protein_coding missense_variant MODERATE 460G>C Asp154His
M0184599 PLHGFPNF_00001 533 3 Gut 0.19 protein_coding missense_variant MODERATE 461A>G Asp154Gly
M0184600 PLHGFPNF_00001 711 3 Gut 0.19 protein_coding synonymous_variant LOW 639G>A Glu213Glu
M0184601 PLHGFPNF_00001 948 3 Gut 0.19 protein_coding synonymous_variant LOW 876T>A Ala292Ala
M0184602 PLHGFPNF_00079 75216 3 Gut 0.19 protein_coding synonymous_variant LOW 804T>C Arg268Arg
M0184603 PLHGFPNF_00079 75219 3 Gut 0.19 protein_coding synonymous_variant LOW 807C>A Gly269Gly






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
PLHGFPNF_00053 SPE00673.1|GH23 100 1.33e-115 1 161 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
PLHGFPNF_00019 3.A.7.10.1 79.6 0 1 724 0.9439 7.5417 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
PLHGFPNF_00021 3.A.7.10.1 76.6 2.2e-190 1 401 0.9093 4.1771 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
PLHGFPNF_00041 3.A.7.10.1 74.9 1.5e-138 1 324 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
PLHGFPNF_00043 3.A.7.10.1 73.3 1.9e-40 1 116 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
PLHGFPNF_00046 3.A.7.10.1 77.8 1.7e-175 1 379 0.9921 3.9479 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
PLHGFPNF_00047 3.A.7.10.1 77.9 6.6e-124 1 271 0.9748 2.8021 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