Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C293
  Reference Plasmid   NC_010813.1
  Reference Plasmid Size   29037
  Reference Plasmid GC Content   0.53
  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
M0084566 JCAFDNPB_00002 1778 5 Skin 0.19 protein_coding missense_variant MODERATE 119C>T Pro40Leu
M0084567 JCAFDNPB_00003 2246 6 Skin 0.23 protein_coding synonymous_variant LOW 252A>G Lys84Lys
M0084568 JCAFDNPB_00003 2443 3 Skin 0.12 protein_coding missense_variant MODERATE 449C>T Ala150Val
M0084569 JCAFDNPB_00003 2515 4 Skin 0.15 protein_coding missense_variant MODERATE 521C>T Ala174Val
M0084570 JCAFDNPB_00003 2558 3 Skin 0.12 protein_coding missense_variant MODERATE 564G>A Met188Ile
M0084571 JCAFDNPB_00003 2674 8 Skin 0.31 protein_coding missense_variant MODERATE 680C>T Thr227Met
M0084572 JCAFDNPB_00003 2779 8 Skin 0.31 protein_coding missense_variant MODERATE 785A>C Asp262Ala
M0084573 JCAFDNPB_00004 2984 4 Skin 0.15 protein_coding missense_variant MODERATE 718G>A Ala240Thr
M0084574 JCAFDNPB_00004 3216 17 Skin 0.65 protein_coding synonymous_variant LOW 486A>G Leu162Leu
M0084575 JCAFDNPB_00004 3235 22 Skin 0.85 protein_coding missense_variant MODERATE 467G>T Gly156Val
M0084576 JCAFDNPB_00004 3498 3 Skin 0.12 protein_coding synonymous_variant LOW 204G>T Leu68Leu
M0084577 JCAFDNPB_00004 3675 22 Skin 0.85 protein_coding synonymous_variant LOW 27A>C Ala9Ala
M0084578 JCAFDNPB_00004 3678 6 Skin 0.23 protein_coding synonymous_variant LOW 24C>T Tyr8Tyr
M0084579 JCAFDNPB_00005 3952 4 Skin 0.15 protein_coding synonymous_variant LOW 222T>C His74His
M0084580 JCAFDNPB_00005 4030 3 Skin 0.12 protein_coding synonymous_variant LOW 300G>A Ser100Ser
M0084581 JCAFDNPB_00005 4118 3 Skin 0.12 protein_coding missense_variant MODERATE 388G>A Ala130Thr
M0084582 JCAFDNPB_00005 4227 6 Skin 0.23 protein_coding missense_variant MODERATE 497G>A Arg166His
M0084583 JCAFDNPB_00005 4682 4 Skin 0.15 protein_coding missense_variant MODERATE 952A>G Thr318Ala
M0084584 JCAFDNPB_00005 4890 23 Skin 0.88 protein_coding missense_variant MODERATE 1160G>C Gly387Ala
M0084585 JCAFDNPB_00005 4921 23 Skin 0.88 protein_coding synonymous_variant LOW 1191T>C Ala397Ala
M0084586 JCAFDNPB_00005 5097 23 Skin 0.88 protein_coding missense_variant MODERATE 1367A>T Gln456Leu
M0084587 JCAFDNPB_00005 5368 23 Skin 0.88 protein_coding synonymous_variant LOW 1638T>C Gly546Gly
M0084588 JCAFDNPB_00005 5371 13 Skin 0.50 protein_coding synonymous_variant LOW 1641C>T Ile547Ile
M0084589 JCAFDNPB_00005 5392 23 Skin 0.88 protein_coding synonymous_variant LOW 1662T>C Ala554Ala
M0084590 JCAFDNPB_00005 5436 16 Skin 0.62 protein_coding missense_variant MODERATE 1706G>A Gly569Glu
M0084591 JCAFDNPB_00005 5515 23 Skin 0.88 protein_coding synonymous_variant LOW 1785A>G Ala595Ala
M0084592 JCAFDNPB_00005 5526 3 Skin 0.12 protein_coding missense_variant MODERATE 1796C>T Ala599Val
M0084593 JCAFDNPB_00005 5542 22 Skin 0.85 protein_coding synonymous_variant LOW 1812C>T Ser604Ser
M0084594 JCAFDNPB_00004 5593 20 Skin 0.77 protein_coding upstream_gene_variant MODIFIER -1892T>C None
M0084595 JCAFDNPB_00004 3713 14 Skin 0.54 protein_coding upstream_gene_variant MODIFIER -12C>T None
M0084596 JCAFDNPB_00005 4893 13 Skin 0.50 protein_coding missense_variant MODERATE 1163C>T Ala388Val
M0084597 JCAFDNPB_00005 5290 17 Skin 0.65 protein_coding synonymous_variant LOW 1560A>G Thr520Thr
M0084598 JCAFDNPB_00003 2832 3 Skin 0.12 protein_coding missense_variant MODERATE 838C>T His280Tyr
M0084599 JCAFDNPB_00005 4817 4 Skin 0.15 protein_coding missense_variant MODERATE 1087G>A Val363Met
M0084600 JCAFDNPB_00005 5138 4 Skin 0.15 protein_coding missense_variant MODERATE 1408G>A Val470Ile
M0084601 JCAFDNPB_00004 3636 8 Skin 0.31 protein_coding synonymous_variant LOW 66C>T His22His
M0084602 JCAFDNPB_00004 3676 4 Skin 0.15 protein_coding missense_variant MODERATE 26C>T Ala9Val
M0084603 JCAFDNPB_00005 4326 6 Skin 0.23 protein_coding missense_variant MODERATE 596C>T Thr199Met
M0084604 JCAFDNPB_00005 4729 3 Skin 0.12 protein_coding synonymous_variant LOW 999T>G Ala333Ala
M0084605 JCAFDNPB_00005 4764 4 Skin 0.15 protein_coding missense_variant MODERATE 1034C>T Ala345Val
M0084606 JCAFDNPB_00005 5027 3 Skin 0.12 protein_coding missense_variant MODERATE 1297A>T Ile433Phe
M0084607 JCAFDNPB_00004 3208 3 Skin 0.12 protein_coding missense_variant MODERATE 494A>G His165Arg
M0084608 JCAFDNPB_00004 3480 3 Skin 0.12 protein_coding synonymous_variant LOW 222G>A Leu74Leu
M0084609 JCAFDNPB_00005 4234 5 Skin 0.19 protein_coding synonymous_variant LOW 504G>A Ala168Ala
M0084610 JCAFDNPB_00005 3759 4 Skin 0.15 protein_coding missense_variant MODERATE 29G>A Gly10Glu
M0084611 JCAFDNPB_00005 4382 5 Skin 0.19 protein_coding missense_variant MODERATE 652T>C Phe218Leu
M0084612 JCAFDNPB_00004 6415 3 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -2714A>G None






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