Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C223
  Reference Plasmid   CP148520.1
  Reference Plasmid Size   64139
  Reference Plasmid GC Content   0.47
  Reference Plasmid Mobility Type   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
M0149073 EIGHHGKD_00026 31033 9 Gut 0.20 protein_coding upstream_gene_variant MODIFIER -4696C>T None
M0149074 EIGHHGKD_00026 31082 7 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -4745C>A None
M0149075 EIGHHGKD_00045 35884 7 Gut 0.16 protein_coding synonymous_variant LOW 354A>G Thr118Thr
M0149076 EIGHHGKD_00049 43683 8 Gut 0.18 protein_coding upstream_gene_variant MODIFIER -3987T>C None
M0149077 EIGHHGKD_00049 43869 8 Gut 0.18 protein_coding upstream_gene_variant MODIFIER -4173A>G None
M0149078 EIGHHGKD_00055 44445 8 Gut 0.18 protein_coding missense_variant MODERATE 416G>A Arg139Lys
M0149079 EIGHHGKD_00055 44446 8 Gut 0.18 protein_coding synonymous_variant LOW 417A>G Arg139Arg
M0149080 EIGHHGKD_00057 48847 8 Gut 0.18 protein_coding missense_variant MODERATE 1198A>G Asn400Asp
M0149081 EIGHHGKD_00057 49116 8 Gut 0.18 protein_coding synonymous_variant LOW 1467A>G Gln489Gln
M0149082 EIGHHGKD_00074 60239 4 Gut 0.09 protein_coding synonymous_variant LOW 831T>C Ile277Ile
M0149083 EIGHHGKD_00072 61028 4 Gut 0.09 protein_coding upstream_gene_variant MODIFIER -2183A>G None
M0149084 EIGHHGKD_00050 40366 8 Gut 0.18 protein_coding missense_variant MODERATE 257A>G Asp86Gly
M0149085 EIGHHGKD_00049 40995 7 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -1299G>A None
M0149086 EIGHHGKD_00049 41366 7 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -1670C>T None
M0149087 EIGHHGKD_00057 49612 7 Gut 0.16 protein_coding missense_variant MODERATE 1963A>G Met655Val
M0149088 EIGHHGKD_00057 49613 6 Gut 0.14 protein_coding missense_variant MODERATE 1964T>G Met655Arg
M0149089 EIGHHGKD_00072 59139 7 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -294G>A None
M0149090 EIGHHGKD_00026 25927 8 Gut 0.18 protein_coding synonymous_variant LOW 411C>A Thr137Thr
M0149091 EIGHHGKD_00024 28612 9 Gut 0.20 protein_coding upstream_gene_variant MODIFIER -4511T>G 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
EIGHHGKD_00055 VFG000846 StcE 86.8 0 1 886 1.0 0.9866 Exoenzyme metalloprotease experiment
EIGHHGKD_00058 VFG038277 Exe T2SS 70.9 1.6e-142 12 372 0.9475 0.7206 Effector delivery system general secretory pathway protein E experiment
EIGHHGKD_00061 VFG038285 Exe T2SS 79.6 8.4e-44 1 103 0.9537 0.7203 Effector delivery system general secretion pathway protein G experiment
EIGHHGKD_00055 VFG000846 StcE 86.8 0 1 886 1.0 0.9866 Exoenzyme metalloprotease prediction
EIGHHGKD_00056 VFG040931 Etp 81.1 1.1e-117 1 270 1.0 0.9278 Effector delivery system type II secretion system protein GspC prediction
EIGHHGKD_00057 VFG040932 Etp 94.7 0 1 655 0.9985 1 Effector delivery system variant type II secretion system secretin EtpD prediction
EIGHHGKD_00058 VFG040933 Etp 96.7 2.1e-197 4 372 0.9685 0.7365 Effector delivery system type II secretion system ATPase GspE prediction
EIGHHGKD_00060 VFG040934 Etp 93.1 2.1e-203 1 407 1.0 1 Effector delivery system type II secretion system inner membrane protein GspF prediction
EIGHHGKD_00061 VFG040935 Etp 97.1 3.3e-52 1 104 0.963 0.7222 Effector delivery system type II secretion system major pseudopilin GspG prediction
EIGHHGKD_00063 VFG040937 Etp 84.3 2.4e-48 1 115 1.0 1 Effector delivery system type II secretion system minor pseudopilin GspI prediction
EIGHHGKD_00064 VFG040938 Etp 92 2.9e-102 1 199 1.0 1 Effector delivery system type II secretion system minor pseudopilin GspJ prediction
EIGHHGKD_00066 VFG040940 Etp 87.7 6.2e-203 36 425 0.9176 1 Effector delivery system type II secretion system protein GspL prediction
EIGHHGKD_00067 VFG040941 Etp 83.2 9.6e-78 1 167 0.9766 0.9824 Effector delivery system type II secretion system protein M prediction
EIGHHGKD_00070 VFG040943 Etp 81.5 1e-52 1 124 0.9688 0.9323 Effector delivery system GspS family T2SS pilot lipoprotein variant EptO 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
EIGHHGKD_00014 AUL82772.1|GT44 98.9 0 1 2563 1 0.8598
EIGHHGKD_00049 AKO58984.1|GH23 100 1.73e-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
EIGHHGKD_00057 1.B.22.1.1 72.1 2.2e-255 10 654 0.9832 0.9803 1 Channels/Pores 1.B β-Barrel Porins 1.B.22 The Outer Bacterial Membrane Secretin (Secretin) Family
EIGHHGKD_00058 3.A.15.1.1 77.3 6.9e-156 8 372 0.9580 1.6009 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.15 The Outer Membrane Protein Secreting Main Terminal Branch (MTB) Family