Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2720
  Reference Plasmid   1111525849861727_bin.16__k141_129379
  Reference Plasmid Size   5339
  Reference Plasmid GC Content   0.41
  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
M0131734 OPDCJGHM_00001 1349 3 Oral 0.60 protein_coding synonymous_variant LOW 1344A>G Gln448Gln
M0131735 OPDCJGHM_00002 1518 4 Oral 0.80 protein_coding synonymous_variant LOW 84G>A Glu28Glu
M0131736 OPDCJGHM_00002 1686 4 Oral 0.80 protein_coding synonymous_variant LOW 252T>G Val84Val
M0131737 OPDCJGHM_00002 1813 4 Oral 0.80 protein_coding synonymous_variant LOW 379C>T Leu127Leu
M0131738 OPDCJGHM_00002 1863 4 Oral 0.80 protein_coding synonymous_variant LOW 429A>G Lys143Lys
M0131739 OPDCJGHM_00002 1875 3 Oral 0.60 protein_coding synonymous_variant LOW 441A>G Ala147Ala
M0131740 OPDCJGHM_00002 1977 4 Oral 0.80 protein_coding synonymous_variant LOW 543T>C Phe181Phe
M0131741 OPDCJGHM_00002 2055 3 Oral 0.60 protein_coding synonymous_variant LOW 621T>G Thr207Thr
M0131742 OPDCJGHM_00002 2100 3 Oral 0.60 protein_coding synonymous_variant LOW 666C>T Asn222Asn
M0131743 OPDCJGHM_00003 2161 4 Oral 0.80 protein_coding synonymous_variant LOW 36C>T Leu12Leu
M0131744 OPDCJGHM_00003 2323 4 Oral 0.80 protein_coding synonymous_variant LOW 198A>G Glu66Glu
M0131745 OPDCJGHM_00003 2330 4 Oral 0.80 protein_coding missense_variant MODERATE 205C>T Leu69Phe
M0131746 OPDCJGHM_00003 2488 4 Oral 0.80 protein_coding synonymous_variant LOW 363A>C Ile121Ile
M0131747 OPDCJGHM_00003 2494 3 Oral 0.60 protein_coding synonymous_variant LOW 369G>A Glu123Glu
M0131748 OPDCJGHM_00003 2686 4 Oral 0.80 protein_coding synonymous_variant LOW 561T>C Gly187Gly
M0131749 OPDCJGHM_00003 2809 3 Oral 0.60 protein_coding synonymous_variant LOW 684T>C Asp228Asp
M0131750 OPDCJGHM_00003 2848 4 Oral 0.80 protein_coding synonymous_variant LOW 723T>A Ala241Ala
M0131751 OPDCJGHM_00004 3037 4 Oral 0.80 protein_coding missense_variant MODERATE 73T>A Cys25Ser
M0131752 OPDCJGHM_00001 4497 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *3079T>C None
M0131753 OPDCJGHM_00001 4620 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3202T>C None
M0131754 OPDCJGHM_00001 4629 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3211G>T None
M0131755 OPDCJGHM_00001 4800 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3382C>T None
M0131756 OPDCJGHM_00001 4806 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3388C>T None
M0131757 OPDCJGHM_00001 4821 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3403C>T None
M0131758 OPDCJGHM_00001 4824 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3406C>T None
M0131759 OPDCJGHM_00001 4857 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3439A>G None
M0131760 OPDCJGHM_00001 4897 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3479C>G None
M0131761 OPDCJGHM_00001 5160 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *3742C>G None
M0131762 OPDCJGHM_00001 5319 5 Oral 1.00 protein_coding downstream_gene_variant MODIFIER *3901T>C None
M0131763 OPDCJGHM_00004 3108 4 Oral 0.80 protein_coding synonymous_variant LOW 144C>T Ile48Ile
M0131764 OPDCJGHM_00004 3126 4 Oral 0.80 protein_coding synonymous_variant LOW 162T>C Phe54Phe
M0131765 OPDCJGHM_00004 3132 4 Oral 0.80 protein_coding synonymous_variant LOW 168A>T Ser56Ser
M0131766 OPDCJGHM_00004 3377 4 Oral 0.80 protein_coding missense_variant MODERATE 413A>G Tyr138Cys
M0131767 OPDCJGHM_00004 3434 4 Oral 0.80 protein_coding missense_variant MODERATE 470C>T Thr157Ile
M0131768 OPDCJGHM_00004 3573 3 Oral 0.60 protein_coding synonymous_variant LOW 609A>T Gly203Gly
M0131769 OPDCJGHM_00004 3597 4 Oral 0.80 protein_coding synonymous_variant LOW 633G>A Lys211Lys
M0131770 OPDCJGHM_00004 3616 4 Oral 0.80 protein_coding missense_variant MODERATE 652G>A Val218Ile
M0131771 OPDCJGHM_00001 4124 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *2706C>A None
M0131772 OPDCJGHM_00001 4127 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *2709T>C None
M0131773 OPDCJGHM_00001 4308 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *2890C>T None
M0131774 OPDCJGHM_00001 4734 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *3316A>G None
M0131775 OPDCJGHM_00001 4848 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *3430A>T None
M0131776 OPDCJGHM_00001 4851 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *3433G>A None
M0131777 OPDCJGHM_00001 4917 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *3499G>A None
M0131778 OPDCJGHM_00001 5007 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *3589C>T None
M0131779 OPDCJGHM_00001 65 3 Oral 0.60 protein_coding synonymous_variant LOW 60C>T Tyr20Tyr
M0131780 OPDCJGHM_00001 122 3 Oral 0.60 protein_coding synonymous_variant LOW 117T>C Phe39Phe
M0131781 OPDCJGHM_00001 134 3 Oral 0.60 protein_coding synonymous_variant LOW 129T>C Phe43Phe
M0131782 OPDCJGHM_00001 199 3 Oral 0.60 protein_coding missense_variant MODERATE 194G>T Ser65Ile
M0131783 OPDCJGHM_00001 437 3 Oral 0.60 protein_coding synonymous_variant LOW 432G>A Thr144Thr
M0131784 OPDCJGHM_00001 443 3 Oral 0.60 protein_coding synonymous_variant LOW 438C>T Val146Val
M0131785 OPDCJGHM_00001 566 3 Oral 0.60 protein_coding synonymous_variant LOW 561A>G Glu187Glu
M0131786 OPDCJGHM_00001 581 3 Oral 0.60 protein_coding synonymous_variant LOW 576G>A Leu192Leu
M0131787 OPDCJGHM_00001 587 3 Oral 0.60 protein_coding synonymous_variant LOW 582C>T Gly194Gly
M0131788 OPDCJGHM_00001 629 3 Oral 0.60 protein_coding synonymous_variant LOW 624C>T Leu208Leu
M0131789 OPDCJGHM_00001 653 3 Oral 0.60 protein_coding synonymous_variant LOW 648C>T Asp216Asp
M0131790 OPDCJGHM_00001 696 3 Oral 0.60 protein_coding synonymous_variant LOW 691C>T Leu231Leu
M0131791 OPDCJGHM_00001 884 3 Oral 0.60 protein_coding synonymous_variant LOW 879A>G Leu293Leu
M0131792 OPDCJGHM_00001 992 3 Oral 0.60 protein_coding synonymous_variant LOW 987G>T Gly329Gly
M0131793 OPDCJGHM_00004 3051 3 Oral 0.60 protein_coding synonymous_variant LOW 87T>C Tyr29Tyr
M0131794 OPDCJGHM_00004 3057 3 Oral 0.60 protein_coding synonymous_variant LOW 93G>A Leu31Leu
M0131795 OPDCJGHM_00004 3058 3 Oral 0.60 protein_coding missense_variant MODERATE 94A>G Ile32Val
M0131796 OPDCJGHM_00004 3060 3 Oral 0.60 protein_coding missense_variant MODERATE 96A>G Ile32Met
M0131797 OPDCJGHM_00004 3219 3 Oral 0.60 protein_coding synonymous_variant LOW 255G>A Lys85Lys
M0131798 OPDCJGHM_00004 3228 3 Oral 0.60 protein_coding synonymous_variant LOW 264A>G Glu88Glu
M0131799 OPDCJGHM_00004 3345 3 Oral 0.60 protein_coding synonymous_variant LOW 381G>A Leu127Leu






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