Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2871
  Reference Plasmid   DP1807004558_bin.3__NODE_125_length_8266_cov_0.607077
  Reference Plasmid Size   8266
  Reference Plasmid GC Content   0.65
  Reference Plasmid Mobility Type   non-mobilizable





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
M0064866 PAGLNKJP_00003 1213 3 Skin 0.38 protein_coding missense_variant MODERATE 421G>A Val141Met
M0064867 PAGLNKJP_00003 1512 3 Skin 0.38 protein_coding synonymous_variant LOW 720G>C Pro240Pro
M0064868 PAGLNKJP_00003 1518 3 Skin 0.38 protein_coding synonymous_variant LOW 726G>C Ala242Ala
M0064869 PAGLNKJP_00003 1521 3 Skin 0.38 protein_coding synonymous_variant LOW 729C>G Gly243Gly
M0064870 PAGLNKJP_00003 1524 3 Skin 0.38 protein_coding synonymous_variant LOW 732C>T His244His
M0064871 PAGLNKJP_00003 1545 3 Skin 0.38 protein_coding synonymous_variant LOW 753T>G Gly251Gly
M0064872 PAGLNKJP_00003 1560 3 Skin 0.38 protein_coding synonymous_variant LOW 768G>C Arg256Arg
M0064873 PAGLNKJP_00003 1569 3 Skin 0.38 protein_coding synonymous_variant LOW 777A>G Lys259Lys
M0064874 PAGLNKJP_00003 1582 3 Skin 0.38 protein_coding missense_variant MODERATE 790G>A Gly264Arg
M0064875 PAGLNKJP_00007 5051 4 Skin 0.50 protein_coding synonymous_variant LOW 213G>A Leu71Leu
M0064876 PAGLNKJP_00007 5132 3 Skin 0.38 protein_coding synonymous_variant LOW 294T>A Arg98Arg
M0064877 PAGLNKJP_00007 5171 3 Skin 0.38 protein_coding synonymous_variant LOW 333A>C Ala111Ala
M0064878 PAGLNKJP_00007 5172 3 Skin 0.38 protein_coding missense_variant MODERATE 334C>T His112Tyr
M0064879 PAGLNKJP_00007 5174 3 Skin 0.38 protein_coding synonymous_variant LOW 336T>C His112His
M0064880 PAGLNKJP_00007 5180 3 Skin 0.38 protein_coding synonymous_variant LOW 342C>T Leu114Leu
M0064881 PAGLNKJP_00007 5183 3 Skin 0.38 protein_coding synonymous_variant LOW 345A>G Ser115Ser
M0064882 PAGLNKJP_00007 5198 3 Skin 0.38 protein_coding synonymous_variant LOW 360T>C Asn120Asn
M0064883 PAGLNKJP_00007 5210 3 Skin 0.38 protein_coding synonymous_variant LOW 372T>C Tyr124Tyr
M0064884 PAGLNKJP_00008 5497 3 Skin 0.38 protein_coding synonymous_variant LOW 255A>G Glu85Glu
M0064885 PAGLNKJP_00008 5533 3 Skin 0.38 protein_coding synonymous_variant LOW 291T>C Arg97Arg






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





        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