Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2494
  Reference Plasmid   1111525849771023_bin.43__k141_283012
  Reference Plasmid Size   163009
  Reference Plasmid GC Content   0.69
  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
M0041751 ADFPJLNF_00133 136099 3 Skin 0.17 protein_coding missense_variant MODERATE 355A>G Thr119Ala
M0041752 ADFPJLNF_00133 136207 4 Skin 0.22 protein_coding missense_variant MODERATE 247A>G Thr83Ala
M0041753 ADFPJLNF_00134 137320 4 Skin 0.22 protein_coding synonymous_variant LOW 72T>C Pro24Pro
M0041754 ADFPJLNF_00131 137458 4 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -4374A>G None
M0041755 ADFPJLNF_00132 138492 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -3941A>G None
M0041756 ADFPJLNF_00132 138495 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -3944G>A None
M0041757 ADFPJLNF_00136 138998 4 Skin 0.22 protein_coding synonymous_variant LOW 471T>G Ser157Ser
M0041758 ADFPJLNF_00106 107024 3 Skin 0.17 protein_coding missense_variant MODERATE 412G>A Ala138Thr
M0041759 ADFPJLNF_00106 107323 3 Skin 0.17 protein_coding synonymous_variant LOW 711T>C Asp237Asp
M0041760 ADFPJLNF_00100 107432 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4572G>A None
M0041761 ADFPJLNF_00100 107604 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4744T>A None
M0041762 ADFPJLNF_00107 107665 3 Skin 0.17 protein_coding missense_variant MODERATE 58A>G Thr20Ala
M0041763 ADFPJLNF_00107 107691 3 Skin 0.17 protein_coding synonymous_variant LOW 84T>C Asn28Asn
M0041764 ADFPJLNF_00107 107868 3 Skin 0.17 protein_coding synonymous_variant LOW 261T>C Val87Val
M0041765 ADFPJLNF_00107 107985 3 Skin 0.17 protein_coding synonymous_variant LOW 378T>C Tyr126Tyr
M0041766 ADFPJLNF_00107 108172 3 Skin 0.17 protein_coding missense_variant MODERATE 565G>A Ala189Thr
M0041767 ADFPJLNF_00107 108382 3 Skin 0.17 protein_coding missense_variant MODERATE 775A>G Thr259Ala
M0041768 ADFPJLNF_00101 108490 3 Skin 0.17 protein_coding downstream_gene_variant MODIFIER *4560A>T None
M0041769 ADFPJLNF_00101 108496 3 Skin 0.17 protein_coding downstream_gene_variant MODIFIER *4566C>G None
M0041770 ADFPJLNF_00108 109055 3 Skin 0.17 protein_coding synonymous_variant LOW 465A>G Arg155Arg
M0041771 ADFPJLNF_00109 109717 3 Skin 0.17 protein_coding synonymous_variant LOW 573T>C Ser191Ser
M0041772 ADFPJLNF_00109 109925 3 Skin 0.17 protein_coding missense_variant MODERATE 365C>T Ala122Val
M0041773 ADFPJLNF_00109 110128 3 Skin 0.17 protein_coding synonymous_variant LOW 162G>A Gly54Gly
M0041774 ADFPJLNF_00109 110265 3 Skin 0.17 protein_coding missense_variant MODERATE 25C>A Gln9Lys
M0041775 ADFPJLNF_00110 110527 3 Skin 0.17 protein_coding synonymous_variant LOW 966T>C Pro322Pro
M0041776 ADFPJLNF_00110 110748 3 Skin 0.17 protein_coding synonymous_variant LOW 745T>C Leu249Leu
M0041777 ADFPJLNF_00125 125250 3 Skin 0.17 protein_coding synonymous_variant LOW 78G>A Ala26Ala
M0041778 ADFPJLNF_00119 125429 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4642A>G None
M0041779 ADFPJLNF_00119 125514 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4727T>C None
M0041780 ADFPJLNF_00126 126195 3 Skin 0.17 protein_coding synonymous_variant LOW 180T>C Tyr60Tyr
M0041781 ADFPJLNF_00129 127903 3 Skin 0.17 protein_coding synonymous_variant LOW 120C>T Leu40Leu
M0041782 ADFPJLNF_00125 128298 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -2971C>T None
M0041783 ADFPJLNF_00130 128476 3 Skin 0.17 protein_coding synonymous_variant LOW 3720C>G Ser1240Ser
M0041784 ADFPJLNF_00130 128479 3 Skin 0.17 protein_coding synonymous_variant LOW 3717C>G Ser1239Ser
M0041785 ADFPJLNF_00130 128481 3 Skin 0.17 protein_coding missense_variant MODERATE 3715T>A Ser1239Thr
M0041786 ADFPJLNF_00130 129632 3 Skin 0.17 protein_coding missense_variant MODERATE 2564T>C Val855Ala
M0041787 ADFPJLNF_00130 129657 3 Skin 0.17 protein_coding missense_variant MODERATE 2539G>A Ala847Thr
M0041788 ADFPJLNF_00130 129825 3 Skin 0.17 protein_coding missense_variant MODERATE 2371C>T Pro791Ser
M0041789 ADFPJLNF_00130 129985 3 Skin 0.17 protein_coding missense_variant MODERATE 2211G>C Met737Ile
M0041790 ADFPJLNF_00130 131427 3 Skin 0.17 protein_coding synonymous_variant LOW 769T>C Leu257Leu
M0041791 ADFPJLNF_00128 132244 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4720T>C None
M0041792 ADFPJLNF_00132 134504 3 Skin 0.17 protein_coding synonymous_variant LOW 48T>C His16His
M0041793 ADFPJLNF_00133 134792 3 Skin 0.17 protein_coding synonymous_variant LOW 1662C>T Pro554Pro
M0041794 ADFPJLNF_00133 135361 3 Skin 0.17 protein_coding missense_variant MODERATE 1093A>G Thr365Ala
M0041795 ADFPJLNF_00133 135388 3 Skin 0.17 protein_coding missense_variant MODERATE 1066T>C Trp356Arg
M0041796 ADFPJLNF_00133 135740 3 Skin 0.17 protein_coding synonymous_variant LOW 714C>G Leu238Leu
M0041797 ADFPJLNF_00133 135974 3 Skin 0.17 protein_coding synonymous_variant LOW 480T>C Val160Val
M0041798 ADFPJLNF_00133 136320 3 Skin 0.17 protein_coding missense_variant MODERATE 134G>A Arg45Gln
M0041799 ADFPJLNF_00135 138359 3 Skin 0.17 protein_coding missense_variant MODERATE 22T>C Ser8Pro
M0041800 ADFPJLNF_00136 139489 3 Skin 0.17 protein_coding missense_variant MODERATE 962T>C Val321Ala
M0041801 ADFPJLNF_00136 139820 3 Skin 0.17 protein_coding synonymous_variant LOW 1293A>G Ala431Ala
M0041802 ADFPJLNF_00136 139886 3 Skin 0.17 protein_coding synonymous_variant LOW 1359T>C Ser453Ser
M0041803 ADFPJLNF_00136 139934 3 Skin 0.17 protein_coding synonymous_variant LOW 1407A>T Ala469Ala
M0041804 ADFPJLNF_00136 139954 3 Skin 0.17 protein_coding missense_variant MODERATE 1427G>A Gly476Asp






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
ADFPJLNF_00069 Arsenic (As) 81.1 8.6e-144 14 336 0.9585 0.9938 prediction
ADFPJLNF_00070 Arsenic (As) 80.3 2.2e-57 15 151 0.8726 0.9856 prediction






        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
ADFPJLNF_00159 QBJ22733.1|GT2 99.2 9.88e-187 1 255 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
ADFPJLNF_00072 2.A.59.1.7 71.1 9.2e-142 18 363 0.9505 0.8827 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.59 The Arsenical Resistance-3 (ACR3) Family