Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3121
  Reference Plasmid   MET0214_bin.2__k81_4332
  Reference Plasmid Size   11023
  Reference Plasmid GC Content   0.33
  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
M0076115 PIAKCDGN_00006 4791 3 Skin 0.43 protein_coding synonymous_variant LOW 729G>A Ala243Ala
M0076116 PIAKCDGN_00006 5311 4 Skin 0.57 protein_coding missense_variant MODERATE 1249T>G Phe417Val
M0076117 PIAKCDGN_00006 5241 3 Skin 0.43 protein_coding synonymous_variant LOW 1179T>C Ile393Ile
M0076118 PIAKCDGN_00006 5326 3 Skin 0.43 protein_coding missense_variant MODERATE 1264G>A Gly422Ser
M0076119 PIAKCDGN_00007 5776 4 Skin 0.57 protein_coding synonymous_variant LOW 279A>G Glu93Glu
M0076120 PIAKCDGN_00007 5866 4 Skin 0.57 protein_coding synonymous_variant LOW 369C>T Asp123Asp
M0076121 PIAKCDGN_00007 5875 4 Skin 0.57 protein_coding synonymous_variant LOW 378C>T Cys126Cys
M0076122 PIAKCDGN_00007 6022 4 Skin 0.57 protein_coding synonymous_variant LOW 525G>A Ala175Ala
M0076123 PIAKCDGN_00007 6145 4 Skin 0.57 protein_coding missense_variant MODERATE 648A>T Lys216Asn
M0076124 PIAKCDGN_00002 6387 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -4854T>C None
M0076125 PIAKCDGN_00002 6399 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -4866A>G None
M0076126 PIAKCDGN_00008 6641 4 Skin 0.57 protein_coding synonymous_variant LOW 1246C>T Leu416Leu
M0076127 PIAKCDGN_00008 7131 4 Skin 0.57 protein_coding synonymous_variant LOW 756A>T Val252Val
M0076128 PIAKCDGN_00008 7452 4 Skin 0.57 protein_coding synonymous_variant LOW 435G>T Gly145Gly
M0076129 PIAKCDGN_00008 7693 4 Skin 0.57 protein_coding missense_variant MODERATE 194T>C Ile65Thr
M0076130 PIAKCDGN_00008 7918 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -32T>A None
M0076131 PIAKCDGN_00008 7991 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -105A>G None
M0076132 PIAKCDGN_00008 8027 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -141C>T None
M0076133 PIAKCDGN_00008 8111 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -225A>T None
M0076134 PIAKCDGN_00008 8119 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -233A>G None
M0076135 PIAKCDGN_00009 8451 4 Skin 0.57 protein_coding missense_variant MODERATE 289G>A Val97Ile
M0076136 PIAKCDGN_00009 8462 4 Skin 0.57 protein_coding synonymous_variant LOW 300T>C Ile100Ile
M0076137 PIAKCDGN_00009 8466 4 Skin 0.57 protein_coding missense_variant MODERATE 304A>G Thr102Ala
M0076138 PIAKCDGN_00010 8605 4 Skin 0.57 protein_coding synonymous_variant LOW 87C>T Asn29Asn






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
PIAKCDGN_00007 PHI:6876 rpiRC 73.8 1.3e-125 4 293 0.9898 1.0000 rodents pneumonia effector protein effector (plant avirulence determinant)






        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
PIAKCDGN_00004 QOX60092.1|GH170 100 1.65e-264 1 358 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