Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C43
  Reference Plasmid   AP026753.1
  Reference Plasmid Size   68332
  Reference Plasmid GC Content   0.52
  Reference Plasmid Mobility Type   conjugative





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
M0142996 GJBFEPOI_00005 3182 3 Gut 1.00 protein_coding synonymous_variant LOW 435A>G Val145Val
M0142997 GJBFEPOI_00005 3270 3 Gut 1.00 protein_coding missense_variant MODERATE 347G>A Gly116Asp
M0142998 GJBFEPOI_00005 3276 3 Gut 1.00 protein_coding missense_variant MODERATE 341A>C Glu114Ala
M0142999 GJBFEPOI_00005 3332 3 Gut 1.00 protein_coding missense_variant MODERATE 285C>G Asp95Glu
M0143000 GJBFEPOI_00005 3334 3 Gut 1.00 protein_coding missense_variant MODERATE 283G>A Asp95Asn
M0143001 GJBFEPOI_00005 3345 3 Gut 1.00 protein_coding missense_variant MODERATE 272A>T Gln91Leu
M0143002 GJBFEPOI_00005 3389 3 Gut 1.00 protein_coding synonymous_variant LOW 228C>G Val76Val
M0143003 GJBFEPOI_00005 3392 3 Gut 1.00 protein_coding synonymous_variant LOW 225T>A Ala75Ala
M0143004 GJBFEPOI_00005 3413 3 Gut 1.00 protein_coding synonymous_variant LOW 204C>A Arg68Arg
M0143005 GJBFEPOI_00005 3422 3 Gut 1.00 protein_coding synonymous_variant LOW 195T>C Arg65Arg
M0143006 GJBFEPOI_00005 3446 3 Gut 1.00 protein_coding synonymous_variant LOW 171T>C Arg57Arg
M0143007 GJBFEPOI_00005 3515 3 Gut 1.00 protein_coding synonymous_variant LOW 102G>A Leu34Leu
M0143008 GJBFEPOI_00005 3517 3 Gut 1.00 protein_coding missense_variant MODERATE 100C>A Leu34Met
M0143009 GJBFEPOI_00005 3539 3 Gut 1.00 protein_coding synonymous_variant LOW 78G>A Pro26Pro
M0143010 GJBFEPOI_00005 3542 3 Gut 1.00 protein_coding synonymous_variant LOW 75G>A Arg25Arg
M0143011 GJBFEPOI_00005 3557 3 Gut 1.00 protein_coding synonymous_variant LOW 60C>G Ala20Ala
M0143012 GJBFEPOI_00005 3593 3 Gut 1.00 protein_coding synonymous_variant LOW 24G>T Ser8Ser
M0143013 GJBFEPOI_00005 3611 3 Gut 1.00 protein_coding synonymous_variant LOW 6T>C Thr2Thr
M0143014 GJBFEPOI_00006 3618 3 Gut 1.00 protein_coding stop_gained HIGH 256A>T Lys86*
M0143015 GJBFEPOI_00006 3621 3 Gut 1.00 protein_coding missense_variant MODERATE 253T>A Trp85Arg
M0143016 GJBFEPOI_00006 3643 3 Gut 1.00 protein_coding missense_variant MODERATE 231G>C Lys77Asn
M0143017 GJBFEPOI_00006 3659 3 Gut 1.00 protein_coding missense_variant MODERATE 215A>T His72Leu
M0143018 GJBFEPOI_00006 3660 3 Gut 1.00 protein_coding missense_variant MODERATE 214C>T His72Tyr
M0143019 GJBFEPOI_00006 3675 3 Gut 1.00 protein_coding missense_variant MODERATE 199A>C Ile67Leu
M0143020 GJBFEPOI_00006 3808 3 Gut 1.00 protein_coding synonymous_variant LOW 66C>T Ile22Ile
M0143021 GJBFEPOI_00006 3815 3 Gut 1.00 protein_coding missense_variant MODERATE 59G>A Arg20Gln
M0143022 GJBFEPOI_00006 3816 3 Gut 1.00 protein_coding synonymous_variant LOW 58C>A Arg20Arg
M0143023 GJBFEPOI_00005 3914 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -298T>G None
M0143024 GJBFEPOI_00005 3920 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -304T>G None
M0143025 GJBFEPOI_00005 3931 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -315C>A None
M0143026 GJBFEPOI_00005 3946 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -330T>G None
M0143027 GJBFEPOI_00005 3968 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -352G>T None
M0143028 GJBFEPOI_00005 3970 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -354T>A None
M0143029 GJBFEPOI_00005 3980 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -364T>A None
M0143030 GJBFEPOI_00005 3981 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -365C>T None
M0143031 GJBFEPOI_00005 4012 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -396A>G None
M0143032 GJBFEPOI_00005 4036 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -420A>G None
M0143033 GJBFEPOI_00005 4046 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -430A>G None
M0143034 GJBFEPOI_00005 4068 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -452C>T None
M0143035 GJBFEPOI_00005 4071 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -455A>G None
M0143036 GJBFEPOI_00005 4104 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -488G>T None
M0143037 GJBFEPOI_00005 4105 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -489A>G None
M0143038 GJBFEPOI_00005 4135 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -519T>G None
M0143039 GJBFEPOI_00005 4204 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -588T>G None
M0143040 GJBFEPOI_00005 4225 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -609C>A None
M0143041 GJBFEPOI_00005 4256 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -640G>A None
M0143042 GJBFEPOI_00005 4258 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -642A>T None
M0143043 GJBFEPOI_00005 4358 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -742A>T None
M0143044 GJBFEPOI_00007 4469 3 Gut 1.00 protein_coding missense_variant MODERATE 28G>A Ala10Thr
M0143045 GJBFEPOI_00007 4478 3 Gut 1.00 protein_coding missense_variant MODERATE 37G>A Gly13Arg
M0143046 GJBFEPOI_00007 4628 3 Gut 1.00 protein_coding missense_variant MODERATE 187G>A Ala63Thr
M0143047 GJBFEPOI_00007 4630 3 Gut 1.00 protein_coding synonymous_variant LOW 189A>G Ala63Ala
M0143048 GJBFEPOI_00007 4687 3 Gut 1.00 protein_coding synonymous_variant LOW 246T>C Phe82Phe
M0143049 GJBFEPOI_00007 4744 3 Gut 1.00 protein_coding synonymous_variant LOW 303C>A Gly101Gly
M0143050 GJBFEPOI_00008 4897 3 Gut 1.00 protein_coding missense_variant MODERATE 41C>T Ala14Val
M0143051 GJBFEPOI_00008 4898 3 Gut 1.00 protein_coding synonymous_variant LOW 42T>C Ala14Ala
M0143052 GJBFEPOI_00008 4946 3 Gut 1.00 protein_coding synonymous_variant LOW 90C>T Arg30Arg
M0143053 GJBFEPOI_00008 5021 3 Gut 1.00 protein_coding synonymous_variant LOW 165G>C Val55Val
M0143054 GJBFEPOI_00008 5033 3 Gut 1.00 protein_coding synonymous_variant LOW 177C>T Arg59Arg
M0143055 GJBFEPOI_00008 5039 3 Gut 1.00 protein_coding synonymous_variant LOW 183A>G Lys61Lys
M0143056 GJBFEPOI_00008 5174 3 Gut 1.00 protein_coding synonymous_variant LOW 318C>A Ala106Ala
M0143057 GJBFEPOI_00008 5194 3 Gut 1.00 protein_coding missense_variant MODERATE 338T>C Met113Thr
M0143058 GJBFEPOI_00008 5198 3 Gut 1.00 protein_coding synonymous_variant LOW 342C>T Pro114Pro
M0143059 GJBFEPOI_00008 5204 3 Gut 1.00 protein_coding synonymous_variant LOW 348T>G Gly116Gly
M0143060 GJBFEPOI_00008 5238 3 Gut 1.00 protein_coding missense_variant MODERATE 382T>G Ser128Ala
M0143061 GJBFEPOI_00008 5270 3 Gut 1.00 protein_coding synonymous_variant LOW 414A>G Val138Val
M0143062 GJBFEPOI_00008 5331 3 Gut 1.00 protein_coding synonymous_variant LOW 475C>A Arg159Arg
M0143063 GJBFEPOI_00008 5590 3 Gut 1.00 protein_coding missense_variant MODERATE 734C>T Ser245Leu
M0143064 GJBFEPOI_00009 5916 3 Gut 1.00 protein_coding missense_variant MODERATE 105A>C Arg35Ser
M0143065 GJBFEPOI_00005 6180 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -2564A>C None
M0143066 GJBFEPOI_00010 6273 3 Gut 1.00 protein_coding missense_variant MODERATE 758A>C Lys253Thr






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
GJBFEPOI_00012 VFG043979 Colicin B 100 2.1e-290 1 511 1.0 1 Exotoxin colicin B prediction







        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
GJBFEPOI_00034 APL26239.1|GH23 100 3.49e-124 1 169 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
GJBFEPOI_00009 8.B.24.3.1 98.3 1.2e-63 1 117 1.0000 0.8298 8 Accessory Factors Involved in Transport 8.B Ribosomally synthesized protein/peptide toxins/agonists that target channels and carriers 8.B.24 The Colicin Immunity Protein (ColIP) Functional Family
GJBFEPOI_00012 1.C.1.3.2 100 1.7e-290 1 511 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family