Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C460
  Reference Plasmid   NZ_CP018188.1
  Reference Plasmid Size   188293
  Reference Plasmid GC Content   0.35
  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
M0165998 CECCADNL_00127 116003 3 Gut 0.14 protein_coding missense_variant MODERATE 453T>A His151Gln
M0165999 CECCADNL_00034 23903 3 Gut 0.14 protein_coding missense_variant MODERATE 327G>T Lys109Asn
M0166000 CECCADNL_00034 24020 3 Gut 0.14 protein_coding synonymous_variant LOW 210C>T Arg70Arg
M0166001 CECCADNL_00034 24077 3 Gut 0.14 protein_coding synonymous_variant LOW 153A>T Ser51Ser
M0166002 CECCADNL_00034 24085 3 Gut 0.14 protein_coding missense_variant MODERATE 145G>A Glu49Lys
M0166003 CECCADNL_00034 24150 3 Gut 0.14 protein_coding missense_variant MODERATE 80T>A Ile27Lys
M0166004 CECCADNL_00034 24170 3 Gut 0.14 protein_coding synonymous_variant LOW 60T>C Leu20Leu
M0166005 CECCADNL_00029 24725 3 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -4458A>T None
M0166006 CECCADNL_00029 24787 3 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -4520A>C None
M0166007 CECCADNL_00029 24919 3 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -4652T>C None
M0166008 CECCADNL_00029 24944 3 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -4677T>C None
M0166009 CECCADNL_00029 24962 3 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -4695C>A 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
FHHJOOEL_00071 3.A.1.134.1 99.5 0 1 635 1.0000 2.5918 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FHHJOOEL_00072 3.A.1.134.1 100 1.6e-134 1 245 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
FHHJOOEL_00075 1.C.21.1.4 95.8 2.1e-22 1 48 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
FHHJOOEL_00151 1.C.21.1.3 85.7 5.6e-18 2 49 0.9796 0.9608 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
FHHJOOEL_00152 1.C.21.1.3 87.8 2.5e-18 2 49 0.9796 0.9608 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
FHHJOOEL_00153 1.C.21.1.9 84 6.3e-20 3 52 0.9615 0.9434 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
FHHJOOEL_00156 3.A.1.124.4 80.4 3.3e-137 1 301 0.9967 1.2286 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
CECCADNL_00071 3.A.1.134.1 99.5 0 1 635 1.0000 2.5918 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
CECCADNL_00072 3.A.1.134.1 100 1.6e-134 1 245 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
CECCADNL_00075 1.C.21.1.4 95.8 2.1e-22 1 48 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
CECCADNL_00151 1.C.21.1.3 85.7 5.6e-18 2 49 0.9796 0.9608 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
CECCADNL_00152 1.C.21.1.3 87.8 2.5e-18 2 49 0.9796 0.9608 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
CECCADNL_00153 1.C.21.1.9 84 6.3e-20 3 52 0.9615 0.9434 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.21 The Lacticin 481 (Lacticin 481) Family
CECCADNL_00156 3.A.1.124.4 80.4 3.3e-137 1 301 0.9967 1.2286 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily