Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3239
  Reference Plasmid   MET0584_bin.9__k81_3475
  Reference Plasmid Size   19558
  Reference Plasmid GC Content   0.62
  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
M0081553 JIGJDAPO_00001 450 3 Skin 0.50 protein_coding synonymous_variant LOW 99T>A Gly33Gly
M0081554 JIGJDAPO_00001 467 3 Skin 0.50 protein_coding missense_variant MODERATE 82C>T Pro28Ser
M0081555 JIGJDAPO_00001 468 3 Skin 0.50 protein_coding missense_variant MODERATE 81A>T Lys27Asn
M0081556 JIGJDAPO_00001 469 3 Skin 0.50 protein_coding missense_variant MODERATE 80A>G Lys27Arg
M0081557 JIGJDAPO_00001 470 3 Skin 0.50 protein_coding missense_variant MODERATE 79A>G Lys27Glu
M0081558 JIGJDAPO_00001 475 3 Skin 0.50 protein_coding missense_variant MODERATE 74T>A Met25Lys
M0081559 JIGJDAPO_00001 476 3 Skin 0.50 protein_coding missense_variant MODERATE 73A>C Met25Leu
M0081560 JIGJDAPO_00003 1916 3 Skin 0.50 protein_coding synonymous_variant LOW 798G>T Thr266Thr
M0081561 JIGJDAPO_00003 2324 3 Skin 0.50 protein_coding splice_region_variant&stop_retained_variant LOW 1206A>G Ter402Ter
M0081562 JIGJDAPO_00004 2525 3 Skin 0.50 protein_coding synonymous_variant LOW 771T>C Leu257Leu
M0081563 JIGJDAPO_00004 2534 3 Skin 0.50 protein_coding synonymous_variant LOW 762C>T Arg254Arg
M0081564 JIGJDAPO_00004 2537 3 Skin 0.50 protein_coding synonymous_variant LOW 759T>C Ile253Ile
M0081565 JIGJDAPO_00004 2549 3 Skin 0.50 protein_coding synonymous_variant LOW 747T>G Leu249Leu
M0081566 JIGJDAPO_00004 2556 3 Skin 0.50 protein_coding missense_variant MODERATE 740C>T Ala247Val
M0081567 JIGJDAPO_00004 2633 3 Skin 0.50 protein_coding synonymous_variant LOW 663C>T Asn221Asn
M0081568 JIGJDAPO_00004 2642 3 Skin 0.50 protein_coding synonymous_variant LOW 654A>G Gln218Gln
M0081569 JIGJDAPO_00004 2648 3 Skin 0.50 protein_coding synonymous_variant LOW 648C>A Ala216Ala
M0081570 JIGJDAPO_00004 2654 3 Skin 0.50 protein_coding synonymous_variant LOW 642T>C Gly214Gly
M0081571 JIGJDAPO_00004 2695 3 Skin 0.50 protein_coding missense_variant MODERATE 601A>G Lys201Glu
M0081572 JIGJDAPO_00004 2704 3 Skin 0.50 protein_coding synonymous_variant LOW 592T>C Leu198Leu
M0081573 JIGJDAPO_00004 2705 3 Skin 0.50 protein_coding synonymous_variant LOW 591G>A Pro197Pro
M0081574 JIGJDAPO_00004 2708 3 Skin 0.50 protein_coding synonymous_variant LOW 588G>C Arg196Arg
M0081575 JIGJDAPO_00004 2711 3 Skin 0.50 protein_coding synonymous_variant LOW 585G>C Gly195Gly
M0081576 JIGJDAPO_00004 2729 3 Skin 0.50 protein_coding synonymous_variant LOW 567G>A Ala189Ala
M0081577 JIGJDAPO_00008 4967 3 Skin 0.50 protein_coding synonymous_variant LOW 429T>C Ser143Ser
M0081578 JIGJDAPO_00008 5012 3 Skin 0.50 protein_coding synonymous_variant LOW 384A>G Pro128Pro
M0081579 JIGJDAPO_00009 5718 3 Skin 0.50 protein_coding synonymous_variant LOW 663T>G Thr221Thr
M0081580 JIGJDAPO_00009 5730 3 Skin 0.50 protein_coding synonymous_variant LOW 651T>C Gly217Gly






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
JIGJDAPO_00016 3.A.1.120.8 81.5 7e-266 1 556 1.0000 0.9982 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily