Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1201
  Reference Plasmid   NZ_CP133000.1
  Reference Plasmid Size   35344
  Reference Plasmid GC Content   0.29
  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
M0112943 BPNGJCOO_00006 3974 15 Skin 0.15 protein_coding stop_gained HIGH 138C>A Cys46*
M0112944 BPNGJCOO_00006 3991 15 Skin 0.15 protein_coding missense_variant MODERATE 155A>T Tyr52Phe
M0112945 BPNGJCOO_00008 4520 3 Skin 0.03 protein_coding synonymous_variant LOW 147C>T Leu49Leu
M0112946 BPNGJCOO_00001 565 19 Skin 0.19 protein_coding missense_variant MODERATE 565A>G Asn189Asp
M0112947 BPNGJCOO_00004 1114 14 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -1383T>C None
M0112948 BPNGJCOO_00002 5532 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3462T>A None
M0112949 BPNGJCOO_00002 5535 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3465G>A None
M0112950 BPNGJCOO_00002 5602 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3532A>T None
M0112951 BPNGJCOO_00002 5608 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3538G>T None
M0112952 BPNGJCOO_00002 5616 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3546C>A None
M0112953 BPNGJCOO_00002 5626 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3556T>C None
M0112954 BPNGJCOO_00002 5628 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3558G>T None
M0112955 BPNGJCOO_00002 5636 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3566A>T None
M0112956 BPNGJCOO_00002 5637 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3567A>T None
M0112957 BPNGJCOO_00002 5654 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3584C>T None
M0112958 BPNGJCOO_00004 2818 3 Skin 0.03 protein_coding missense_variant MODERATE 322A>C Lys108Gln
M0112959 BPNGJCOO_00004 2877 24 Skin 0.24 protein_coding synonymous_variant LOW 381C>T Asn127Asn
M0112960 BPNGJCOO_00004 2509 12 Skin 0.12 protein_coding missense_variant MODERATE 13C>A Gln5Lys
M0112961 BPNGJCOO_00015 8898 3 Skin 0.03 protein_coding missense_variant MODERATE 267C>A Phe89Leu
M0112962 BPNGJCOO_00013 7788 4 Skin 0.04 protein_coding missense_variant MODERATE 879T>G Asp293Glu
M0112963 BPNGJCOO_00002 5424 6 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -3354T>C None
M0112964 BPNGJCOO_00002 5439 5 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -3369G>A None
M0112965 BPNGJCOO_00002 5634 4 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -3564A>T None
M0112966 BPNGJCOO_00001 624 4 Skin 0.04 protein_coding synonymous_variant LOW 624T>C Leu208Leu
M0112967 BPNGJCOO_00004 989 3 Skin 0.03 protein_coding upstream_gene_variant MODIFIER -1508T>G None
M0112968 BPNGJCOO_00025 17541 3 Skin 0.03 protein_coding missense_variant MODERATE 277C>A Leu93Ile






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
BPNGJCOO_00017 Copper (Cu) 100 1.6e-33 1 69 1.0000 1.0000 prediction
BPNGJCOO_00018 Copper (Cu), Silver (Ag) 75.6 0 1 795 1.0000 1.0013 prediction
FDDLKIBO_00017 Copper (Cu) 100 1.6e-33 1 69 1.0000 1.0000 prediction
FDDLKIBO_00018 Copper (Cu), Silver (Ag) 75.6 0 1 795 1.0000 1.0013 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
BPNGJCOO_00025 ARO:3000251 95.7 2.0997789948253e-320 1 488 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
BPNGJCOO_00026 ARO:3000319 98.7 1.82e-228 1 299 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) antibiotic inactivation
FDDLKIBO_00025 ARO:3000251 95.7 2.0997789948253e-320 1 488 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
FDDLKIBO_00026 ARO:3000319 98.7 1.82e-228 1 299 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) 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






        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
BPNGJCOO_00018 3.A.3.5.19 73.6 0 4 795 0.9962 0.9888 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily
BPNGJCOO_00025 3.A.1.121.1 98.8 5.7e-272 1 488 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
BPNGJCOO_00030 1.C.20.2.2 81.8 8.8e-20 1 55 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.20 The Nisin (Nisin) Family
FDDLKIBO_00018 3.A.3.5.19 73.6 0 4 795 0.9962 0.9888 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.3 The P-type ATPase (P-ATPase) Superfamily
FDDLKIBO_00025 3.A.1.121.1 98.8 5.7e-272 1 488 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FDDLKIBO_00030 1.C.20.2.2 81.8 8.8e-20 1 55 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.20 The Nisin (Nisin) Family