Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C80
  Reference Plasmid   CP035010.1
  Reference Plasmid Size   6758
  Reference Plasmid GC Content   0.51
  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
M0143738 DGJMBFOD_00002 1082 3 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -482T>A None
M0143739 DGJMBFOD_00002 2354 3 Gut 0.17 protein_coding missense_variant MODERATE 791C>T Ala264Val
M0143740 DGJMBFOD_00002 2586 3 Gut 0.17 protein_coding synonymous_variant LOW 1023G>T Leu341Leu
M0143741 DGJMBFOD_00003 3935 3 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -81A>G None
M0143742 DGJMBFOD_00003 4993 3 Gut 0.17 protein_coding synonymous_variant LOW 978G>A Ala326Ala
M0143743 DGJMBFOD_00003 5268 13 Gut 0.72 protein_coding missense_variant MODERATE 1253T>A Met418Lys
M0143744 DGJMBFOD_00002 6478 13 Gut 0.72 protein_coding downstream_gene_variant MODIFIER *2695G>A None
M0143745 DGJMBFOD_00001 173 4 Gut 0.22 protein_coding missense_variant MODERATE 173T>C Met58Thr
M0143746 DGJMBFOD_00002 948 3 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -616T>C None
M0143747 DGJMBFOD_00002 951 4 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -613C>T None
M0143748 DGJMBFOD_00002 1497 3 Gut 0.17 protein_coding upstream_gene_variant MODIFIER -67T>C None
M0143749 DGJMBFOD_00002 1501 4 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -63C>T None
M0143750 DGJMBFOD_00002 1551 4 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -13T>C None
M0143751 DGJMBFOD_00002 1679 4 Gut 0.22 protein_coding missense_variant MODERATE 116C>T Thr39Ile
M0143752 DGJMBFOD_00002 1753 4 Gut 0.22 protein_coding missense_variant MODERATE 190A>G Ser64Gly
M0143753 DGJMBFOD_00002 3080 4 Gut 0.22 protein_coding missense_variant MODERATE 1517G>A Gly506Asp
M0143754 DGJMBFOD_00002 3578 4 Gut 0.22 protein_coding missense_variant MODERATE 2015C>T Pro672Leu
M0143755 DGJMBFOD_00003 3797 4 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -219C>A None
M0143756 DGJMBFOD_00003 3972 4 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -44G>A None
M0143757 DGJMBFOD_00003 4010 4 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -6G>A None
M0143758 DGJMBFOD_00003 4123 4 Gut 0.22 protein_coding synonymous_variant LOW 108T>C Gly36Gly
M0143759 DGJMBFOD_00003 4129 4 Gut 0.22 protein_coding synonymous_variant LOW 114G>A Gly38Gly
M0143760 DGJMBFOD_00003 4220 4 Gut 0.22 protein_coding missense_variant MODERATE 205A>G Ser69Gly
M0143761 DGJMBFOD_00003 4237 4 Gut 0.22 protein_coding synonymous_variant LOW 222C>T Gly74Gly
M0143762 DGJMBFOD_00003 4891 4 Gut 0.22 protein_coding synonymous_variant LOW 876C>T Ser292Ser
M0143763 DGJMBFOD_00003 5141 4 Gut 0.22 protein_coding missense_variant MODERATE 1126G>A Asp376Asn
M0143764 DGJMBFOD_00003 5197 4 Gut 0.22 protein_coding synonymous_variant LOW 1182G>A Gly394Gly
M0143765 DGJMBFOD_00003 5206 4 Gut 0.22 protein_coding synonymous_variant LOW 1191C>T Ala397Ala
M0143766 DGJMBFOD_00002 6350 4 Gut 0.22 protein_coding downstream_gene_variant MODIFIER *2567C>T None
M0143767 DGJMBFOD_00002 6358 3 Gut 0.17 protein_coding downstream_gene_variant MODIFIER *2575G>A None
M0143768 DGJMBFOD_00001 871 6 Gut 0.33 protein_coding missense_variant MODERATE 871T>C Cys291Arg
M0143769 DGJMBFOD_00002 974 6 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -590C>T None
M0143770 DGJMBFOD_00002 2836 6 Gut 0.33 protein_coding missense_variant MODERATE 1273G>A Ala425Thr
M0143771 DGJMBFOD_00002 3746 6 Gut 0.33 protein_coding missense_variant MODERATE 2183A>G Gln728Arg
M0143772 DGJMBFOD_00002 3747 6 Gut 0.33 protein_coding missense_variant MODERATE 2184A>C Gln728His






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







        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





        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
DGJMBFOD_00003 1.C.1.4.1 99.3 0 1 581 1.0000 0.9983 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family
DGJMBFOD_00005 1.A.73.1.3 89.4 6.2e-16 12 58 0.8103 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.73 The Colicin Lysis Protein (CLP) Family