Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1041
  Reference Plasmid   NZ_CP102429.1
  Reference Plasmid Size   245277
  Reference Plasmid GC Content   0.60
  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
M0106879 GIEHMNEA_00256 229988 9 Skin 0.28 protein_coding missense_variant MODERATE 1219A>C Thr407Pro
M0106880 GIEHMNEA_00257 231493 8 Skin 0.25 protein_coding missense_variant MODERATE 964C>A Gln322Lys
M0106881 GIEHMNEA_00255 228268 8 Skin 0.25 protein_coding synonymous_variant LOW 1491T>G Pro497Pro
M0106882 GIEHMNEA_00255 228529 8 Skin 0.25 protein_coding synonymous_variant LOW 1230T>C Ile410Ile
M0106883 GIEHMNEA_00255 228565 8 Skin 0.25 protein_coding synonymous_variant LOW 1194C>G Ala398Ala
M0106884 GIEHMNEA_00255 228709 8 Skin 0.25 protein_coding synonymous_variant LOW 1050A>G Leu350Leu
M0106885 GIEHMNEA_00255 228774 8 Skin 0.25 protein_coding missense_variant MODERATE 985G>C Val329Leu
M0106886 GIEHMNEA_00255 229036 8 Skin 0.25 protein_coding missense_variant MODERATE 723C>A Asn241Lys
M0106887 GIEHMNEA_00255 229048 8 Skin 0.25 protein_coding synonymous_variant LOW 711G>C Leu237Leu
M0106888 GIEHMNEA_00257 231757 8 Skin 0.25 protein_coding missense_variant MODERATE 700G>A Val234Ile
M0106889 GIEHMNEA_00257 231949 6 Skin 0.19 protein_coding missense_variant MODERATE 508C>G Gln170Glu
M0106890 GIEHMNEA_00256 231198 7 Skin 0.22 protein_coding synonymous_variant LOW 9C>T Phe3Phe
M0106891 GIEHMNEA_00257 231276 7 Skin 0.22 protein_coding missense_variant MODERATE 1181G>A Arg394His
M0106892 GIEHMNEA_00257 231336 7 Skin 0.22 protein_coding missense_variant MODERATE 1121G>A Ser374Asn






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
GIEHMNEA_00007 Zinc (Zn), Cadmium (Cd) 73.2 0 1 1044 1.0000 0.9943 experiment
GIEHMNEA_00215 Copper (Cu) 86 1.9e-201 1 414 0.9020 0.8501 experiment
GIEHMNEA_00216 Copper (Cu) 89.9 2e-114 1 228 1.0000 1.0044 experiment
GIEHMNEA_00217 Copper (Cu) 80.3 3.2e-136 1 310 1.0000 1.0000 experiment
GIEHMNEA_00218 Copper (Cu) 91.2 5.8e-60 1 125 1.0000 0.9921 experiment
GIEHMNEA_00219 Copper (Cu) 87.5 3.6e-173 1 336 1.0000 1.0244 experiment
GIEHMNEA_00220 Copper (Cu), Silver (Ag) 91.3 0 1 609 1.0049 1.0049 experiment
GIEHMNEA_00007 Zinc (Zn), Cadmium (Cd) 73.8 0 1 1044 1.0000 0.9943 prediction
GIEHMNEA_00215 Copper (Cu) 100 2e-260 1 459 1.0000 1.0000 prediction
GIEHMNEA_00216 Copper (Cu) 100 3.8e-127 1 228 1.0000 1.0000 prediction
GIEHMNEA_00217 Copper (Cu) 100 1.4e-164 1 310 1.0000 1.0000 prediction
GIEHMNEA_00218 Copper (Cu) 100 7.3e-64 1 125 1.0000 1.0000 prediction
GIEHMNEA_00219 Copper (Cu) 100 3.3e-196 1 336 1.0000 1.0000 prediction
GIEHMNEA_00220 Copper (Cu), Silver (Ag) 99.8 0 1 609 1.0000 1.0000 prediction
GIEHMNEA_00261 Copper (Cu) 74.7 7.4e-291 1 692 0.9986 0.9105 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
GIEHMNEA_00245 ARO:3002660 99.6 1.07e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) antibiotic inactivation






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
GIEHMNEA_00005 PHI:3165 hopA1 77.9 2.9e-121 1 263 1.0000 0.8976 eudicots leaf spot (celery); leaf spot (eggplant); leaf spot (sweet pepper); wilt rot (muskmelon); stem rot (muskmelon); stem rot (chrysanthemum); leaf spot (soybean) effector (plant avirulence determinant) effector (plant avirulence determinant)






        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
GIEHMNEA_00023 UUW74154.1|GH23 100 9.72e-134 1 189 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
GIEHMNEA_00007 2.A.6.1.5 73.7 0 1 1044 0.9990 0.9953 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.6 The Resistance-Nodulation-Cell Division (RND) Superfamily
GIEHMNEA_00217 9.B.62.1.2 80.3 1.2e-134 1 310 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.62 The Copper Resistance (CopD) Family