Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1017
  Reference Plasmid   NZ_CP095504.1
  Reference Plasmid Size   120616
  Reference Plasmid GC Content   0.51
  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
M0191822 GALLLKKE_00094 74271 4 Gut 0.29 protein_coding upstream_gene_variant MODIFIER -4316T>C None
M0191823 GALLLKKE_00103 74932 8 Gut 0.57 protein_coding missense_variant MODERATE 400A>T Arg134Trp
M0191824 GALLLKKE_00104 75086 9 Gut 0.64 protein_coding synonymous_variant LOW 324G>A Arg108Arg
M0191825 GALLLKKE_00104 75143 9 Gut 0.64 protein_coding synonymous_variant LOW 267G>T Gly89Gly
M0191826 GALLLKKE_00105 75588 9 Gut 0.64 protein_coding synonymous_variant LOW 51G>A Gly17Gly
M0191827 GALLLKKE_00105 75734 8 Gut 0.57 protein_coding stop_gained HIGH 197G>A Trp66*
M0191828 GALLLKKE_00105 75751 9 Gut 0.64 protein_coding missense_variant MODERATE 214A>G Thr72Ala
M0191829 GALLLKKE_00107 76270 9 Gut 0.64 protein_coding missense_variant MODERATE 167T>C Met56Thr
M0191830 GALLLKKE_00098 76533 9 Gut 0.64 protein_coding upstream_gene_variant MODIFIER -3756A>G None
M0191831 GALLLKKE_00100 78092 11 Gut 0.79 protein_coding upstream_gene_variant MODIFIER -4244T>C None
M0191832 GALLLKKE_00109 78533 11 Gut 0.79 protein_coding missense_variant MODERATE 167A>G Gln56Arg
M0191833 GALLLKKE_00109 78843 11 Gut 0.79 protein_coding missense_variant MODERATE 477A>G Ile159Met
M0191834 GALLLKKE_00110 79874 11 Gut 0.79 protein_coding missense_variant MODERATE 649T>C Phe217Leu
M0191835 GALLLKKE_00104 80088 11 Gut 0.79 protein_coding upstream_gene_variant MODIFIER -4679T>C None
M0191836 GALLLKKE_00111 80999 6 Gut 0.43 protein_coding synonymous_variant LOW 829C>A Arg277Arg
M0191837 GALLLKKE_00111 81842 11 Gut 0.79 protein_coding missense_variant MODERATE 1672C>A Leu558Met
M0191838 GALLLKKE_00111 81864 11 Gut 0.79 protein_coding missense_variant MODERATE 1694G>A Gly565Asp
M0191839 GALLLKKE_00111 82040 11 Gut 0.79 protein_coding missense_variant MODERATE 1870C>T His624Tyr
M0191840 GALLLKKE_00111 82060 11 Gut 0.79 protein_coding missense_variant MODERATE 1890A>G Ile630Met
M0191841 GALLLKKE_00111 82279 11 Gut 0.79 protein_coding synonymous_variant LOW 2109G>A Leu703Leu
M0191842 GALLLKKE_00112 83571 11 Gut 0.79 protein_coding synonymous_variant LOW 1071T>C Thr357Thr
M0191843 GALLLKKE_00114 84067 11 Gut 0.79 protein_coding upstream_gene_variant MODIFIER -463A>C None
M0191844 GALLLKKE_00078 52184 6 Gut 0.43 protein_coding synonymous_variant LOW 123A>G Gln41Gln
M0191845 GALLLKKE_00078 52397 6 Gut 0.43 protein_coding synonymous_variant LOW 336G>A Arg112Arg
M0191846 GALLLKKE_00078 52738 6 Gut 0.43 protein_coding missense_variant MODERATE 677A>T Gln226Leu
M0191847 GALLLKKE_00078 52749 6 Gut 0.43 protein_coding missense_variant MODERATE 688C>A Leu230Met
M0191848 GALLLKKE_00078 52798 6 Gut 0.43 protein_coding missense_variant MODERATE 737C>T Ala246Val
M0191849 GALLLKKE_00078 52859 6 Gut 0.43 protein_coding synonymous_variant LOW 798A>G Leu266Leu
M0191850 GALLLKKE_00078 52863 6 Gut 0.43 protein_coding missense_variant MODERATE 802A>G Thr268Ala
M0191851 GALLLKKE_00078 52865 6 Gut 0.43 protein_coding synonymous_variant LOW 804C>G Thr268Thr
M0191852 GALLLKKE_00078 52868 6 Gut 0.43 protein_coding synonymous_variant LOW 807C>T Tyr269Tyr
M0191853 GALLLKKE_00078 53164 6 Gut 0.43 protein_coding missense_variant MODERATE 1103A>G Lys368Arg
M0191854 GALLLKKE_00078 53180 6 Gut 0.43 protein_coding synonymous_variant LOW 1119G>A Glu373Glu
M0191855 GALLLKKE_00078 53300 4 Gut 0.29 protein_coding synonymous_variant LOW 1239C>T Tyr413Tyr
M0191856 GALLLKKE_00079 53606 7 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -1313C>T None
M0191857 GALLLKKE_00076 51558 3 Gut 0.21 protein_coding missense_variant MODERATE 271G>A Glu91Lys
M0191858 GALLLKKE_00077 51687 3 Gut 0.21 protein_coding missense_variant MODERATE 23C>T Thr8Ile
M0191859 GALLLKKE_00077 51845 3 Gut 0.21 protein_coding missense_variant MODERATE 181G>A Gly61Ser
M0191860 GALLLKKE_00077 51979 3 Gut 0.21 protein_coding synonymous_variant LOW 315C>T Pro105Pro






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
GALLLKKE_00032 VFG001445 TraJ 100 6e-116 1 200 0.8772 0.995 Invasion unknown protein experiment
GALLLKKE_00112 VFG001827 ShET2 99.7 7.9e-225 1 391 1.0 1 Exotoxin enterotoxin experiment
GALLLKKE_00032 VFG001445 TraJ 100 4.5e-115 1 200 0.8772 0.995 Invasion unknown protein prediction
GALLLKKE_00112 VFG036084 Enterotoxin SenB/TieB 100 1.2e-224 1 391 1.0 1 Exotoxin enterotoxin production-related protein TieB 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
GALLLKKE_00109 PHI:10792 cjrA 100 3.6e-162 1 283 1.0000 0.9725 primates neonatal meningitis iron-regulated protein increased virulence (hypervirulence)
GALLLKKE_00110 PHI:10793 cjrB 100 1.7e-137 1 258 1.0000 1.0000 primates neonatal meningitis colicin Js sensitivity protein increased virulence (hypervirulence)
GALLLKKE_00111 PHI:10794 cjrC 100 0 1 753 1.0000 1.0000 primates neonatal meningitis TonB-dependent colicin J protein increased virulence (hypervirulence)
GALLLKKE_00112 PHI:10795 senB 100 4.2e-225 1 391 1.0000 1.0000 primates neonatal meningitis enterotoxin increased virulence (hypervirulence)






        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
GALLLKKE_00034 AML12690.1|GH23 100 7.04e-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
GALLLKKE_00110 2.C.1.1.3 100 3.7e-137 1 258 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.C Ion-gradient-driven energizers 2.C.1 The TonB-ExbB-ExbD/TolA-TolQ-TolR Outer Membrane Receptor Energizers and Stabilizers (TonB/TolA) Family
GALLLKKE_00111 1.B.14.7.1 100 0 1 753 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.14 The Outer Membrane Receptor (OMR) Family
GALLLKKE_00131 2.A.108.2.10 100 5e-101 3 175 0.9886 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.108 The Iron/Lead Transporter (ILT) Family
GALLLKKE_00132 2.A.108.2.10 100 0 1 646 1.0000 3.7341 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.108 The Iron/Lead Transporter (ILT) Family