Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2414
  Reference Plasmid   1111525849768046_bin.37__k141_194913
  Reference Plasmid Size   18098
  Reference Plasmid GC Content   0.38
  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
M0123741 GFMDGENL_00003 3805 4 Oral 0.57 protein_coding synonymous_variant LOW 436C>T Leu146Leu
M0123742 GFMDGENL_00003 3873 4 Oral 0.57 protein_coding synonymous_variant LOW 504A>T Ser168Ser
M0123743 GFMDGENL_00003 3942 4 Oral 0.57 protein_coding synonymous_variant LOW 573T>C Asn191Asn
M0123744 GFMDGENL_00003 3999 3 Oral 0.43 protein_coding synonymous_variant LOW 630G>A Thr210Thr
M0123745 GFMDGENL_00003 4077 4 Oral 0.57 protein_coding missense_variant MODERATE 708A>G Ile236Met
M0123746 GFMDGENL_00003 4083 3 Oral 0.43 protein_coding synonymous_variant LOW 714A>G Leu238Leu
M0123747 GFMDGENL_00004 4156 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -86T>C None
M0123748 GFMDGENL_00004 4391 3 Oral 0.43 protein_coding synonymous_variant LOW 150G>A Gln50Gln
M0123749 GFMDGENL_00004 4502 4 Oral 0.57 protein_coding synonymous_variant LOW 261T>A Gly87Gly
M0123750 GFMDGENL_00004 4521 4 Oral 0.57 protein_coding missense_variant MODERATE 280C>T Pro94Ser
M0123751 GFMDGENL_00004 4523 4 Oral 0.57 protein_coding synonymous_variant LOW 282C>T Pro94Pro
M0123752 GFMDGENL_00004 4526 4 Oral 0.57 protein_coding synonymous_variant LOW 285G>A Lys95Lys
M0123753 GFMDGENL_00004 4583 3 Oral 0.43 protein_coding synonymous_variant LOW 342T>C Asp114Asp
M0123754 GFMDGENL_00004 4637 4 Oral 0.57 protein_coding synonymous_variant LOW 396A>G Gly132Gly
M0123755 GFMDGENL_00004 4749 4 Oral 0.57 protein_coding missense_variant MODERATE 508A>C Lys170Gln
M0123756 GFMDGENL_00004 4892 3 Oral 0.43 protein_coding synonymous_variant LOW 651C>T Cys217Cys
M0123757 GFMDGENL_00004 4929 3 Oral 0.43 protein_coding missense_variant MODERATE 688T>G Ser230Ala
M0123758 GFMDGENL_00004 5045 3 Oral 0.43 protein_coding synonymous_variant LOW 804G>A Glu268Glu
M0123759 GFMDGENL_00004 5294 5 Oral 0.71 protein_coding synonymous_variant LOW 1053A>G Val351Val
M0123760 GFMDGENL_00004 5447 5 Oral 0.71 protein_coding synonymous_variant LOW 1206T>C Tyr402Tyr
M0123761 GFMDGENL_00004 5636 4 Oral 0.57 protein_coding synonymous_variant LOW 1395C>T Ala465Ala
M0123762 GFMDGENL_00004 5672 5 Oral 0.71 protein_coding synonymous_variant LOW 1431A>C Ile477Ile
M0123763 GFMDGENL_00004 4763 3 Oral 0.43 protein_coding synonymous_variant LOW 522T>C Cys174Cys
M0123764 GFMDGENL_00004 5195 3 Oral 0.43 protein_coding synonymous_variant LOW 954C>T Leu318Leu
M0123765 GFMDGENL_00004 5328 4 Oral 0.57 protein_coding missense_variant MODERATE 1087C>T His363Tyr
M0123766 GFMDGENL_00004 5333 4 Oral 0.57 protein_coding synonymous_variant LOW 1092A>G Ser364Ser
M0123767 GFMDGENL_00004 5345 4 Oral 0.57 protein_coding synonymous_variant LOW 1104A>T Leu368Leu
M0123768 GFMDGENL_00004 5615 4 Oral 0.57 protein_coding synonymous_variant LOW 1374C>T Asn458Asn
M0123769 GFMDGENL_00004 5759 3 Oral 0.43 protein_coding synonymous_variant LOW 1518T>G Ala506Ala
M0123770 GFMDGENL_00004 5063 3 Oral 0.43 protein_coding synonymous_variant LOW 822G>T Ser274Ser
M0123771 GFMDGENL_00004 5087 3 Oral 0.43 protein_coding synonymous_variant LOW 846T>C Asn282Asn






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