Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1283
  Reference Plasmid   NZ_CP147609.1
  Reference Plasmid Size   107409
  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
M0205690 EMGPEAKN_00047 53672 169 Gut 0.98 protein_coding upstream_gene_variant MODIFIER -4245T>C None
M0205691 EMGPEAKN_00054 54113 169 Gut 0.98 protein_coding missense_variant MODERATE 191A>G Gln64Arg
M0205692 EMGPEAKN_00054 54423 169 Gut 0.98 protein_coding missense_variant MODERATE 501A>G Ile167Met
M0205693 EMGPEAKN_00055 55454 169 Gut 0.98 protein_coding missense_variant MODERATE 649T>C Phe217Leu
M0205694 EMGPEAKN_00051 55668 169 Gut 0.98 protein_coding upstream_gene_variant MODIFIER -4680T>C None
M0205695 EMGPEAKN_00056 57422 169 Gut 0.98 protein_coding missense_variant MODERATE 1672C>A Leu558Met
M0205696 EMGPEAKN_00056 57444 169 Gut 0.98 protein_coding missense_variant MODERATE 1694G>A Gly565Asp
M0205697 EMGPEAKN_00056 57620 169 Gut 0.98 protein_coding missense_variant MODERATE 1870C>T His624Tyr
M0205698 EMGPEAKN_00056 57640 169 Gut 0.98 protein_coding missense_variant MODERATE 1890A>G Ile630Met
M0205699 EMGPEAKN_00056 57859 169 Gut 0.98 protein_coding synonymous_variant LOW 2109G>A Leu703Leu
M0205700 EMGPEAKN_00059 59647 169 Gut 0.98 protein_coding upstream_gene_variant MODIFIER -463A>C None
M0205701 EMGPEAKN_00053 53427 65 Gut 0.38 protein_coding missense_variant MODERATE 403G>T Ala135Ser
M0205702 EMGPEAKN_00051 55604 36 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -4616A>G None
M0205703 EMGPEAKN_00053 53580 7 Gut 0.04 protein_coding missense_variant MODERATE 556A>C Thr186Pro
M0205704 EMGPEAKN_00047 49106 7 Gut 0.04 protein_coding missense_variant MODERATE 322G>A Val108Ile
M0205705 EMGPEAKN_00047 49110 7 Gut 0.04 protein_coding synonymous_variant LOW 318T>G Thr106Thr
M0205706 EMGPEAKN_00047 49113 7 Gut 0.04 protein_coding synonymous_variant LOW 315C>T Arg105Arg
M0205707 EMGPEAKN_00047 49164 7 Gut 0.04 protein_coding synonymous_variant LOW 264C>T Arg88Arg
M0205708 EMGPEAKN_00047 49167 7 Gut 0.04 protein_coding synonymous_variant LOW 261G>A Ala87Ala
M0205709 EMGPEAKN_00047 49173 7 Gut 0.04 protein_coding synonymous_variant LOW 255A>T Thr85Thr
M0205710 EMGPEAKN_00047 49176 7 Gut 0.04 protein_coding synonymous_variant LOW 252T>C Cys84Cys
M0205711 EMGPEAKN_00047 49185 7 Gut 0.04 protein_coding synonymous_variant LOW 243A>G Val81Val
M0205712 EMGPEAKN_00047 49188 7 Gut 0.04 protein_coding synonymous_variant LOW 240G>A Arg80Arg
M0205713 EMGPEAKN_00047 49194 7 Gut 0.04 protein_coding synonymous_variant LOW 234A>T Gly78Gly
M0205714 EMGPEAKN_00047 49241 7 Gut 0.04 protein_coding missense_variant MODERATE 187C>A Gln63Lys
M0205715 EMGPEAKN_00047 49242 7 Gut 0.04 protein_coding synonymous_variant LOW 186T>C His62His
M0205716 EMGPEAKN_00047 49248 7 Gut 0.04 protein_coding synonymous_variant LOW 180G>A Gly60Gly
M0205717 EMGPEAKN_00047 49249 7 Gut 0.04 protein_coding missense_variant MODERATE 179G>A Gly60Glu
M0205718 EMGPEAKN_00047 49264 7 Gut 0.04 protein_coding missense_variant MODERATE 164T>A Leu55Gln
M0205719 EMGPEAKN_00047 49317 7 Gut 0.04 protein_coding synonymous_variant LOW 111T>G Pro37Pro
M0205720 EMGPEAKN_00048 49430 7 Gut 0.04 protein_coding synonymous_variant LOW 324G>A Lys108Lys
M0205721 EMGPEAKN_00048 49448 7 Gut 0.04 protein_coding synonymous_variant LOW 306C>T Phe102Phe
M0205722 EMGPEAKN_00048 49523 7 Gut 0.04 protein_coding synonymous_variant LOW 231A>G Glu77Glu
M0205723 EMGPEAKN_00048 49565 7 Gut 0.04 protein_coding synonymous_variant LOW 189C>A Gly63Gly
M0205724 EMGPEAKN_00048 49577 7 Gut 0.04 protein_coding synonymous_variant LOW 177A>G Gly59Gly
M0205725 EMGPEAKN_00048 49585 7 Gut 0.04 protein_coding missense_variant MODERATE 169A>G Asn57Asp
M0205726 EMGPEAKN_00048 49601 7 Gut 0.04 protein_coding synonymous_variant LOW 153A>T Val51Val
M0205727 EMGPEAKN_00048 49606 7 Gut 0.04 protein_coding missense_variant MODERATE 148T>C Trp50Arg
M0205728 EMGPEAKN_00048 49625 7 Gut 0.04 protein_coding synonymous_variant LOW 129A>G Thr43Thr
M0205729 EMGPEAKN_00048 49643 7 Gut 0.04 protein_coding synonymous_variant LOW 111C>T Ala37Ala
M0205730 EMGPEAKN_00042 49850 13 Gut 0.08 protein_coding upstream_gene_variant MODIFIER -4955T>C None
M0205731 EMGPEAKN_00049 50105 13 Gut 0.08 protein_coding missense_variant MODERATE 251G>A Gly84Asp
M0205732 EMGPEAKN_00050 50511 13 Gut 0.08 protein_coding missense_variant MODERATE 400A>T Arg134Trp
M0205733 EMGPEAKN_00051 50665 13 Gut 0.08 protein_coding synonymous_variant LOW 324G>A Arg108Arg
M0205734 EMGPEAKN_00051 50722 13 Gut 0.08 protein_coding synonymous_variant LOW 267G>T Gly89Gly
M0205735 EMGPEAKN_00052 51167 13 Gut 0.08 protein_coding synonymous_variant LOW 51G>A Gly17Gly
M0205736 EMGPEAKN_00052 51331 13 Gut 0.08 protein_coding missense_variant MODERATE 215A>G Tyr72Cys
M0205737 EMGPEAKN_00046 51749 13 Gut 0.08 protein_coding upstream_gene_variant MODIFIER -3393T>C None
M0205738 EMGPEAKN_00046 51850 13 Gut 0.08 protein_coding upstream_gene_variant MODIFIER -3494A>G None
M0205739 EMGPEAKN_00057 58951 5 Gut 0.03 protein_coding missense_variant MODERATE 871G>A Asp291Asn
M0205740 EMGPEAKN_00052 51313 11 Gut 0.06 protein_coding stop_gained HIGH 197G>A Trp66*
M0205741 EMGPEAKN_00056 56579 9 Gut 0.05 protein_coding synonymous_variant LOW 829C>A Arg277Arg
M0205742 EMGPEAKN_00053 53450 8 Gut 0.05 protein_coding synonymous_variant LOW 426A>T Ser142Ser
M0205743 EMGPEAKN_00059 59417 3 Gut 0.02 protein_coding upstream_gene_variant MODIFIER -693G>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
EMGPEAKN_00057 VFG001827 ShET2 99.7 7.9e-225 1 391 1.0 1 Exotoxin enterotoxin experiment
EMGPEAKN_00057 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
EMGPEAKN_00054 PHI:10792 cjrA 100 5.6e-166 1 291 1.0000 1.0000 primates neonatal meningitis iron-regulated protein increased virulence (hypervirulence)
EMGPEAKN_00055 PHI:10793 cjrB 100 1.7e-137 1 258 1.0000 1.0000 primates neonatal meningitis colicin Js sensitivity protein increased virulence (hypervirulence)
EMGPEAKN_00056 PHI:10794 cjrC 100 0 1 753 1.0000 1.0000 primates neonatal meningitis TonB-dependent colicin J protein increased virulence (hypervirulence)
EMGPEAKN_00057 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
EMGPEAKN_00099 AXI38019.1|GH23 100 2.02e-123 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
EMGPEAKN_00033 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
EMGPEAKN_00034 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
EMGPEAKN_00055 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
EMGPEAKN_00056 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