Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1090
  Reference Plasmid   NZ_CP110075.1
  Reference Plasmid Size   74135
  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
M0195839 MNCBEJDO_00003 3450 6 Gut 0.46 protein_coding missense_variant MODERATE 401A>G Glu134Gly
M0195840 MNCBEJDO_00003 3733 6 Gut 0.46 protein_coding missense_variant MODERATE 118G>A Val40Ile
M0195841 MNCBEJDO_00001 4106 7 Gut 0.54 protein_coding upstream_gene_variant MODIFIER -2993A>G None
M0195842 MNCBEJDO_00058 55690 3 Gut 0.23 protein_coding missense_variant MODERATE 4026T>G Phe1342Leu
M0195843 MNCBEJDO_00058 53692 3 Gut 0.23 protein_coding synonymous_variant LOW 6024C>T Asp2008Asp
M0195844 MNCBEJDO_00058 53719 3 Gut 0.23 protein_coding synonymous_variant LOW 5997T>C Asn1999Asn
M0195845 MNCBEJDO_00058 53815 3 Gut 0.23 protein_coding synonymous_variant LOW 5901A>C Val1967Val
M0195846 MNCBEJDO_00058 53836 3 Gut 0.23 protein_coding synonymous_variant LOW 5880G>A Gln1960Gln






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
MNCBEJDO_00009 VFG002173 AS 98.4 0 1 1296 1.0 1 Adherence aggregation substance Asa1 experiment
MNCBEJDO_00009 VFG002173 AS 98.4 0 1 1296 1.0 1 Adherence aggregation substance Asa1 prediction
MNCBEJDO_00033 VFG042998 Bee (biofilm enhancer in enterococci) 98.4 8.2e-207 1 373 1.0 1 Adherence Srt2 prediction
MNCBEJDO_00034 VFG042997 Bee (biofilm enhancer in enterococci) 98.5 1.5e-222 1 398 1.0 1 Adherence Srt1 prediction
MNCBEJDO_00035 VFG042996 Bee (biofilm enhancer in enterococci) 93.9 1.8e-265 1 495 1.0 1 Adherence Bee3 prediction
MNCBEJDO_00036 VFG042995 Bee (biofilm enhancer in enterococci) 97.5 1.6e-131 1 243 1.0 1 Adherence Bee2 prediction
MNCBEJDO_00037 VFG042994 Bee (biofilm enhancer in enterococci) 98.4 0 1 1085 1.0 1.0018 Adherence Bee1 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
MNCBEJDO_00049 AAL59475.1|GT0 98.7 2.95e-210 112 426 0.7394 1
MNCBEJDO_00067 AXG87442.1|GH73 99.5 1.31e-285 1 392 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