Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C936
  Reference Plasmid   NZ_CP081915.1
  Reference Plasmid Size   32924
  Reference Plasmid GC Content   0.47
  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
M0189176 PIGBIICN_00009 7811 3 Gut 0.25 protein_coding synonymous_variant LOW 717T>C His239His
M0189177 PIGBIICN_00004 8675 3 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -3121T>G None
M0189178 PIGBIICN_00010 8850 3 Gut 0.25 protein_coding missense_variant MODERATE 65T>C Met22Thr
M0189179 PIGBIICN_00012 9978 3 Gut 0.25 protein_coding synonymous_variant LOW 1585T>C Leu529Leu
M0189180 PIGBIICN_00012 9979 3 Gut 0.25 protein_coding synonymous_variant LOW 1584A>G Ser528Ser
M0189181 PIGBIICN_00012 9982 3 Gut 0.25 protein_coding synonymous_variant LOW 1581A>C Ala527Ala
M0189182 PIGBIICN_00012 9985 3 Gut 0.25 protein_coding synonymous_variant LOW 1578C>A Ile526Ile
M0189183 PIGBIICN_00012 9988 3 Gut 0.25 protein_coding synonymous_variant LOW 1575A>G Val525Val
M0189184 PIGBIICN_00012 9994 3 Gut 0.25 protein_coding synonymous_variant LOW 1569G>C Thr523Thr
M0189185 PIGBIICN_00012 9996 3 Gut 0.25 protein_coding missense_variant MODERATE 1567A>G Thr523Ala
M0189186 PIGBIICN_00012 10000 3 Gut 0.25 protein_coding synonymous_variant LOW 1563G>A Glu521Glu
M0189187 PIGBIICN_00012 10003 3 Gut 0.25 protein_coding synonymous_variant LOW 1560G>C Ser520Ser
M0189188 PIGBIICN_00012 10434 4 Gut 0.33 protein_coding missense_variant MODERATE 1129G>T Ala377Ser
M0189189 PIGBIICN_00012 11555 3 Gut 0.25 protein_coding missense_variant MODERATE 8A>T Glu3Val
M0189190 PIGBIICN_00012 11556 3 Gut 0.25 protein_coding missense_variant MODERATE 7G>A Glu3Lys
M0189191 PIGBIICN_00012 11558 3 Gut 0.25 protein_coding missense_variant MODERATE 5G>A Arg2His
M0189192 PIGBIICN_00013 11612 3 Gut 0.25 protein_coding missense_variant MODERATE 632A>G Asn211Ser
M0189193 PIGBIICN_00013 11653 3 Gut 0.25 protein_coding synonymous_variant LOW 591A>G Lys197Lys
M0189194 PIGBIICN_00013 11737 3 Gut 0.25 protein_coding synonymous_variant LOW 507G>A Glu169Glu
M0189195 PIGBIICN_00013 11842 3 Gut 0.25 protein_coding synonymous_variant LOW 402A>G Ala134Ala
M0189196 PIGBIICN_00013 11860 3 Gut 0.25 protein_coding synonymous_variant LOW 384A>G Leu128Leu
M0189197 PIGBIICN_00013 11869 3 Gut 0.25 protein_coding synonymous_variant LOW 375T>C Ile125Ile
M0189198 PIGBIICN_00012 10182 3 Gut 0.25 protein_coding synonymous_variant LOW 1381T>C Leu461Leu






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