Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1236
  Reference Plasmid   NZ_CP140090.1
  Reference Plasmid Size   73590
  Reference Plasmid GC Content   0.43
  Reference Plasmid Mobility Type   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
M0200520 JEALIIEM_00037 47612 3 Gut 0.21 protein_coding missense_variant MODERATE 226G>A Ala76Thr
M0200521 JEALIIEM_00037 47614 3 Gut 0.21 protein_coding synonymous_variant LOW 228G>T Ala76Ala
M0200522 JEALIIEM_00037 47616 3 Gut 0.21 protein_coding missense_variant MODERATE 230C>A Thr77Asn
M0200523 JEALIIEM_00037 47743 3 Gut 0.21 protein_coding synonymous_variant LOW 357T>C Tyr119Tyr
M0200524 JEALIIEM_00037 47822 3 Gut 0.21 protein_coding synonymous_variant LOW 436C>T Leu146Leu
M0200525 JEALIIEM_00037 48106 3 Gut 0.21 protein_coding synonymous_variant LOW 720C>T Asp240Asp
M0200526 JEALIIEM_00037 48122 3 Gut 0.21 protein_coding missense_variant MODERATE 736T>G Ser246Ala
M0200527 JEALIIEM_00037 48124 3 Gut 0.21 protein_coding synonymous_variant LOW 738C>T Ser246Ser
M0200528 JEALIIEM_00037 48152 3 Gut 0.21 protein_coding missense_variant MODERATE 766T>C Trp256Arg
M0200529 JEALIIEM_00037 48162 3 Gut 0.21 protein_coding missense_variant MODERATE 776A>G Asn259Ser
M0200530 JEALIIEM_00037 48409 3 Gut 0.21 protein_coding synonymous_variant LOW 1023T>C Ser341Ser
M0200531 JEALIIEM_00037 48463 3 Gut 0.21 protein_coding synonymous_variant LOW 1077A>G Arg359Arg
M0200532 JEALIIEM_00037 48806 3 Gut 0.21 protein_coding missense_variant MODERATE 1420A>C Ile474Leu






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
JEALIIEM_00010 AGL62902.2|GH36 98.7 2.04e-222 1 309 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