Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2100
  Reference Plasmid   1111525849742797_bin.26__k141_71883
  Reference Plasmid Size   8672
  Reference Plasmid GC Content   0.52
  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
M0024740 ILAHPGCF_00005 3327 5 Skin 0.36 protein_coding synonymous_variant LOW 204T>C Ala68Ala
M0024741 ILAHPGCF_00002 3581 8 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -2184G>T None
M0024742 ILAHPGCF_00002 3582 8 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -2185G>A None
M0024743 ILAHPGCF_00006 3662 7 Skin 0.50 protein_coding missense_variant MODERATE 1309A>G Ser437Gly
M0024744 ILAHPGCF_00006 3888 7 Skin 0.50 protein_coding synonymous_variant LOW 1083T>C Arg361Arg
M0024745 ILAHPGCF_00006 3978 9 Skin 0.64 protein_coding synonymous_variant LOW 993T>C Ala331Ala
M0024746 ILAHPGCF_00006 4293 5 Skin 0.36 protein_coding synonymous_variant LOW 678G>A Leu226Leu
M0024747 ILAHPGCF_00006 4371 7 Skin 0.50 protein_coding synonymous_variant LOW 600C>T Ile200Ile
M0024748 ILAHPGCF_00006 4929 4 Skin 0.29 protein_coding synonymous_variant LOW 42T>C Gly14Gly
M0024749 ILAHPGCF_00007 5690 3 Skin 0.21 protein_coding synonymous_variant LOW 552T>G Pro184Pro
M0024750 ILAHPGCF_00002 6163 3 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -4766A>G None
M0024751 ILAHPGCF_00005 3132 4 Skin 0.29 protein_coding synonymous_variant LOW 9T>C Asn3Asn
M0024752 ILAHPGCF_00005 3175 4 Skin 0.29 protein_coding missense_variant MODERATE 52C>T Pro18Ser
M0024753 ILAHPGCF_00002 2495 6 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1098T>C None
M0024754 ILAHPGCF_00002 2520 6 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1123G>A None
M0024755 ILAHPGCF_00005 3240 7 Skin 0.50 protein_coding synonymous_variant LOW 117C>T Gly39Gly
M0024756 ILAHPGCF_00005 3267 7 Skin 0.50 protein_coding synonymous_variant LOW 144T>C Gly48Gly
M0024757 ILAHPGCF_00006 4518 6 Skin 0.43 protein_coding missense_variant MODERATE 453C>G Asp151Glu
M0024758 ILAHPGCF_00002 725 4 Skin 0.29 protein_coding synonymous_variant LOW 673C>T Leu225Leu
M0024759 ILAHPGCF_00002 816 4 Skin 0.29 protein_coding synonymous_variant LOW 582T>C Phe194Phe
M0024760 ILAHPGCF_00002 903 4 Skin 0.29 protein_coding synonymous_variant LOW 495A>G Gln165Gln
M0024761 ILAHPGCF_00002 1104 5 Skin 0.36 protein_coding synonymous_variant LOW 294A>G Val98Val
M0024762 ILAHPGCF_00004 2768 7 Skin 0.50 protein_coding missense_variant MODERATE 30T>G Ile10Met
M0024763 ILAHPGCF_00006 4698 4 Skin 0.29 protein_coding synonymous_variant LOW 273T>C Gly91Gly
M0024764 ILAHPGCF_00006 4701 4 Skin 0.29 protein_coding synonymous_variant LOW 270C>T Ser90Ser
M0024765 ILAHPGCF_00006 4746 3 Skin 0.21 protein_coding synonymous_variant LOW 225T>C Asn75Asn
M0024766 ILAHPGCF_00006 4752 3 Skin 0.21 protein_coding synonymous_variant LOW 219T>C Arg73Arg
M0024767 ILAHPGCF_00006 4755 3 Skin 0.21 protein_coding synonymous_variant LOW 216G>A Thr72Thr
M0024768 ILAHPGCF_00006 4782 4 Skin 0.29 protein_coding synonymous_variant LOW 189C>T Asp63Asp
M0024769 ILAHPGCF_00006 4806 3 Skin 0.21 protein_coding synonymous_variant LOW 165C>T Pro55Pro
M0024770 ILAHPGCF_00006 4839 3 Skin 0.21 protein_coding synonymous_variant LOW 132G>A Lys44Lys
M0024771 ILAHPGCF_00006 4842 3 Skin 0.21 protein_coding synonymous_variant LOW 129G>A Glu43Glu
M0024772 ILAHPGCF_00002 603 3 Skin 0.21 protein_coding synonymous_variant LOW 795G>A Ala265Ala
M0024773 ILAHPGCF_00002 1784 3 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -387A>G None
M0024774 ILAHPGCF_00004 2757 3 Skin 0.21 protein_coding missense_variant MODERATE 19G>A Val7Ile
M0024775 ILAHPGCF_00004 2765 3 Skin 0.21 protein_coding synonymous_variant LOW 27T>C Thr9Thr
M0024776 ILAHPGCF_00004 2772 3 Skin 0.21 protein_coding missense_variant MODERATE 34A>G Ile12Val
M0024777 ILAHPGCF_00004 2777 3 Skin 0.21 protein_coding synonymous_variant LOW 39A>G Leu13Leu






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
ILAHPGCF_00004 Cadmium (Cd), Hydrogen Peroxide (H2O2) [class: Peroxides], Hydrochloric acid (HCl) [class: Acid] 96.6 6.9e-37 1 87 1.0000 1.0000 prediction
ILAHPGCF_00005 Cadmium (Cd), Hydrogen Peroxide (H2O2) [class: Peroxides], Hydrochloric acid (HCl) [class: Acid] 70.1 8.5e-27 2 88 0.9886 1.0000 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
ILAHPGCF_00002 PHI:2959 mdh 83.3 2.5e-140 1 311 0.9968 0.9968 bony fishes enteric septicemia malate dehydrogenase reduced virulence
ILAHPGCF_00003 PHI:10537 argR 88.5 3.9e-73 1 156 1.0000 1.0000 rodents infection arginine repressor reduced virulence






        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