Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C279
  Reference Plasmid   NC_005007.1
  Reference Plasmid Size   4679
  Reference Plasmid GC Content   0.32
  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
M0084531 KNBGBGBI_00005 1800 8 Skin 0.42 protein_coding missense_variant MODERATE 32G>A Arg11Gln
M0084532 KNBGBGBI_00005 1873 8 Skin 0.42 protein_coding synonymous_variant LOW 105A>C Thr35Thr
M0084533 KNBGBGBI_00005 1891 7 Skin 0.37 protein_coding synonymous_variant LOW 123C>T Ser41Ser
M0084534 KNBGBGBI_00005 1930 8 Skin 0.42 protein_coding synonymous_variant LOW 162T>C Asn54Asn
M0084535 KNBGBGBI_00005 2216 7 Skin 0.37 protein_coding missense_variant MODERATE 448G>A Asp150Asn
M0084536 KNBGBGBI_00005 2260 9 Skin 0.47 protein_coding synonymous_variant LOW 492C>T Phe164Phe
M0084537 KNBGBGBI_00005 2363 9 Skin 0.47 protein_coding missense_variant MODERATE 595A>G Asn199Asp
M0084538 KNBGBGBI_00005 2448 9 Skin 0.47 protein_coding missense_variant MODERATE 680G>A Gly227Asp
M0084539 KNBGBGBI_00005 2504 9 Skin 0.47 protein_coding missense_variant MODERATE 736T>G Ser246Ala
M0084540 KNBGBGBI_00008 3594 9 Skin 0.47 protein_coding synonymous_variant LOW 33A>G Ser11Ser
M0084541 KNBGBGBI_00008 4046 11 Skin 0.58 protein_coding missense_variant MODERATE 485A>G Asp162Gly
M0084542 KNBGBGBI_00008 4314 11 Skin 0.58 protein_coding synonymous_variant LOW 753G>A Pro251Pro
M0084543 KNBGBGBI_00004 4471 9 Skin 0.47 protein_coding upstream_gene_variant MODIFIER -2990A>G None
M0084544 KNBGBGBI_00001 104 4 Skin 0.21 protein_coding synonymous_variant LOW 96T>G Gly32Gly
M0084545 KNBGBGBI_00001 220 5 Skin 0.26 protein_coding missense_variant MODERATE 212A>G His71Arg
M0084546 KNBGBGBI_00002 294 4 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -142A>G None
M0084547 KNBGBGBI_00002 295 6 Skin 0.32 protein_coding upstream_gene_variant MODIFIER -141G>A None
M0084548 KNBGBGBI_00002 296 4 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -140C>A None
M0084549 KNBGBGBI_00003 625 8 Skin 0.42 protein_coding missense_variant MODERATE 28G>A Val10Ile
M0084550 KNBGBGBI_00004 1497 4 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -16T>G None
M0084551 KNBGBGBI_00004 3040 3 Skin 0.16 protein_coding upstream_gene_variant MODIFIER -1559A>G None
M0084552 KNBGBGBI_00004 3195 4 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -1714T>C None
M0084553 KNBGBGBI_00008 3790 6 Skin 0.32 protein_coding synonymous_variant LOW 229C>T Leu77Leu
M0084554 KNBGBGBI_00005 1976 7 Skin 0.37 protein_coding synonymous_variant LOW 208C>A Arg70Arg
M0084555 KNBGBGBI_00005 2125 4 Skin 0.21 protein_coding missense_variant MODERATE 357G>A Met119Ile
M0084556 KNBGBGBI_00005 2644 6 Skin 0.32 protein_coding synonymous_variant LOW 876T>C Asn292Asn
M0084557 KNBGBGBI_00008 3759 4 Skin 0.21 protein_coding synonymous_variant LOW 198G>A Glu66Glu
M0084558 KNBGBGBI_00008 3999 3 Skin 0.16 protein_coding synonymous_variant LOW 438T>C Asn146Asn
M0084559 KNBGBGBI_00008 4003 3 Skin 0.16 protein_coding missense_variant MODERATE 442A>G Thr148Ala
M0084560 KNBGBGBI_00008 4077 4 Skin 0.21 protein_coding synonymous_variant LOW 516T>C Asp172Asp
M0084561 KNBGBGBI_00008 4264 4 Skin 0.21 protein_coding missense_variant MODERATE 703G>T Val235Phe
M0084562 KNBGBGBI_00002 365 4 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -71A>C 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