Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2436
  Reference Plasmid   1111525849768046_bin.37__k141_29812
  Reference Plasmid Size   1868
  Reference Plasmid GC Content   0.37
  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
M0125724 LBMDCBFP_00002 1318 5 Oral 0.83 protein_coding upstream_gene_variant MODIFIER -261A>T None
M0125725 LBMDCBFP_00002 1372 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -207G>A None
M0125726 LBMDCBFP_00002 1410 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -169C>T None
M0125727 LBMDCBFP_00002 1465 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -114T>C None
M0125728 LBMDCBFP_00002 1521 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -58A>G None
M0125729 LBMDCBFP_00002 1662 5 Oral 0.83 protein_coding synonymous_variant LOW 84A>G Leu28Leu
M0125730 LBMDCBFP_00002 1671 5 Oral 0.83 protein_coding synonymous_variant LOW 93G>A Lys31Lys
M0125731 LBMDCBFP_00002 1770 3 Oral 0.50 protein_coding synonymous_variant LOW 192C>T Tyr64Tyr
M0125732 LBMDCBFP_00002 1788 3 Oral 0.50 protein_coding synonymous_variant LOW 210T>A Ser70Ser
M0125733 LBMDCBFP_00001 169 3 Oral 0.50 protein_coding synonymous_variant LOW 144G>A Glu48Glu
M0125734 LBMDCBFP_00001 199 4 Oral 0.67 protein_coding synonymous_variant LOW 174C>T Phe58Phe
M0125735 LBMDCBFP_00001 553 4 Oral 0.67 protein_coding synonymous_variant LOW 528T>C Asn176Asn
M0125736 LBMDCBFP_00001 655 4 Oral 0.67 protein_coding synonymous_variant LOW 630T>C Tyr210Tyr
M0125737 LBMDCBFP_00001 664 5 Oral 0.83 protein_coding synonymous_variant LOW 639T>C Phe213Phe
M0125738 LBMDCBFP_00001 688 4 Oral 0.67 protein_coding synonymous_variant LOW 663A>T Val221Val
M0125739 LBMDCBFP_00001 700 5 Oral 0.83 protein_coding synonymous_variant LOW 675T>A Ser225Ser
M0125740 LBMDCBFP_00001 718 4 Oral 0.67 protein_coding synonymous_variant LOW 693G>A Leu231Leu
M0125741 LBMDCBFP_00001 727 5 Oral 0.83 protein_coding synonymous_variant LOW 702C>T Ser234Ser
M0125742 LBMDCBFP_00001 766 5 Oral 0.83 protein_coding synonymous_variant LOW 741A>G Val247Val
M0125743 LBMDCBFP_00001 868 4 Oral 0.67 protein_coding synonymous_variant LOW 843T>C Asp281Asp
M0125744 LBMDCBFP_00001 871 4 Oral 0.67 protein_coding synonymous_variant LOW 846T>C Tyr282Tyr
M0125745 LBMDCBFP_00001 886 5 Oral 0.83 protein_coding synonymous_variant LOW 861T>C Phe287Phe
M0125746 LBMDCBFP_00001 982 3 Oral 0.50 protein_coding synonymous_variant LOW 957C>T His319His
M0125747 LBMDCBFP_00002 1487 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -92G>A None
M0125748 LBMDCBFP_00001 403 4 Oral 0.67 protein_coding synonymous_variant LOW 378T>A Thr126Thr
M0125749 LBMDCBFP_00001 772 3 Oral 0.50 protein_coding synonymous_variant LOW 747G>A Glu249Glu
M0125750 LBMDCBFP_00001 790 3 Oral 0.50 protein_coding synonymous_variant LOW 765T>A Ala255Ala
M0125751 LBMDCBFP_00001 922 3 Oral 0.50 protein_coding synonymous_variant LOW 897C>T Cys299Cys
M0125752 LBMDCBFP_00001 1039 3 Oral 0.50 protein_coding synonymous_variant LOW 1014G>A Val338Val
M0125753 LBMDCBFP_00002 1302 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -277G>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







        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