Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3379
  Reference Plasmid   MGYG000299065__MGYG000299065_52
  Reference Plasmid Size   3831
  Reference Plasmid GC Content   0.45
  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
M0137869 MMBENLEO_00001 2054 3 Oral 0.43 protein_coding missense_variant MODERATE 1165A>G Thr389Ala
M0137870 MMBENLEO_00001 2115 3 Oral 0.43 protein_coding synonymous_variant LOW 1104G>T Thr368Thr
M0137871 MMBENLEO_00001 2157 3 Oral 0.43 protein_coding synonymous_variant LOW 1062G>A Arg354Arg
M0137872 MMBENLEO_00001 2337 7 Oral 1.00 protein_coding synonymous_variant LOW 882G>T Ala294Ala
M0137873 MMBENLEO_00001 2339 5 Oral 0.71 protein_coding missense_variant MODERATE 880G>A Ala294Thr
M0137874 MMBENLEO_00001 2346 6 Oral 0.86 protein_coding synonymous_variant LOW 873C>T Tyr291Tyr
M0137875 MMBENLEO_00001 2439 5 Oral 0.71 protein_coding synonymous_variant LOW 780T>C Ile260Ile
M0137876 MMBENLEO_00001 2798 7 Oral 1.00 protein_coding missense_variant MODERATE 421G>C Glu141Gln
M0137877 MMBENLEO_00001 2803 6 Oral 0.86 protein_coding missense_variant MODERATE 416C>G Ala139Gly
M0137878 MMBENLEO_00001 2940 7 Oral 1.00 protein_coding synonymous_variant LOW 279A>G Lys93Lys
M0137879 MMBENLEO_00001 3075 3 Oral 0.43 protein_coding synonymous_variant LOW 144G>A Thr48Thr
M0137880 MMBENLEO_00001 3081 7 Oral 1.00 protein_coding synonymous_variant LOW 138T>A Pro46Pro
M0137881 MMBENLEO_00001 3083 5 Oral 0.71 protein_coding missense_variant MODERATE 136C>T Pro46Ser
M0137882 MMBENLEO_00001 3117 3 Oral 0.43 protein_coding synonymous_variant LOW 102G>A Ala34Ala
M0137883 MMBENLEO_00001 3165 6 Oral 0.86 protein_coding missense_variant MODERATE 54G>T Met18Ile
M0137884 MMBENLEO_00001 3191 3 Oral 0.43 protein_coding missense_variant MODERATE 28G>A Val10Met
M0137885 MMBENLEO_00001 3289 7 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -71A>G None
M0137886 MMBENLEO_00001 3329 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -111T>C None
M0137887 MMBENLEO_00001 3429 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -211G>T None
M0137888 MMBENLEO_00001 3442 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -224G>T None
M0137889 MMBENLEO_00001 3449 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -231G>A None
M0137890 MMBENLEO_00001 3496 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -278G>A None
M0137891 MMBENLEO_00001 3507 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -289T>A None
M0137892 MMBENLEO_00001 3510 6 Oral 0.86 protein_coding upstream_gene_variant MODIFIER -292T>C None
M0137893 MMBENLEO_00001 3517 5 Oral 0.71 protein_coding upstream_gene_variant MODIFIER -299T>C None
M0137894 MMBENLEO_00001 3518 5 Oral 0.71 protein_coding upstream_gene_variant MODIFIER -300G>C None
M0137895 MMBENLEO_00001 3617 5 Oral 0.71 protein_coding upstream_gene_variant MODIFIER -399T>C None
M0137896 MMBENLEO_00001 2688 3 Oral 0.43 protein_coding synonymous_variant LOW 531T>C Thr177Thr
M0137897 MMBENLEO_00001 2883 3 Oral 0.43 protein_coding synonymous_variant LOW 336T>C His112His
M0137898 MMBENLEO_00001 2886 3 Oral 0.43 protein_coding synonymous_variant LOW 333T>G Ala111Ala
M0137899 MMBENLEO_00001 3014 3 Oral 0.43 protein_coding missense_variant MODERATE 205G>A Ala69Thr
M0137900 MMBENLEO_00001 3027 5 Oral 0.71 protein_coding synonymous_variant LOW 192T>C Tyr64Tyr
M0137901 MMBENLEO_00001 3280 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -62G>A None
M0137902 MMBENLEO_00001 3742 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -524T>A None
M0137903 MMBENLEO_00001 3787 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -569T>C None
M0137904 MMBENLEO_00001 687 3 Oral 0.43 protein_coding synonymous_variant LOW 2532C>T Tyr844Tyr
M0137905 MMBENLEO_00001 702 3 Oral 0.43 protein_coding synonymous_variant LOW 2517T>C Ser839Ser
M0137906 MMBENLEO_00001 714 3 Oral 0.43 protein_coding synonymous_variant LOW 2505T>C Ile835Ile
M0137907 MMBENLEO_00001 879 4 Oral 0.57 protein_coding synonymous_variant LOW 2340T>C Leu780Leu
M0137908 MMBENLEO_00001 1038 3 Oral 0.43 protein_coding synonymous_variant LOW 2181C>T Asp727Asp
M0137909 MMBENLEO_00001 1119 3 Oral 0.43 protein_coding synonymous_variant LOW 2100T>C Asn700Asn
M0137910 MMBENLEO_00001 1125 3 Oral 0.43 protein_coding synonymous_variant LOW 2094C>T Tyr698Tyr
M0137911 MMBENLEO_00001 1146 4 Oral 0.57 protein_coding synonymous_variant LOW 2073T>G Thr691Thr
M0137912 MMBENLEO_00001 1191 4 Oral 0.57 protein_coding synonymous_variant LOW 2028A>G Glu676Glu
M0137913 MMBENLEO_00001 1248 4 Oral 0.57 protein_coding synonymous_variant LOW 1971T>A Val657Val
M0137914 MMBENLEO_00001 1287 3 Oral 0.43 protein_coding synonymous_variant LOW 1932A>C Thr644Thr
M0137915 MMBENLEO_00001 1493 4 Oral 0.57 protein_coding missense_variant MODERATE 1726T>A Leu576Met
M0137916 MMBENLEO_00001 1494 4 Oral 0.57 protein_coding synonymous_variant LOW 1725C>T Asn575Asn
M0137917 MMBENLEO_00001 1500 3 Oral 0.43 protein_coding synonymous_variant LOW 1719T>G Ala573Ala
M0137918 MMBENLEO_00001 1554 4 Oral 0.57 protein_coding synonymous_variant LOW 1665C>T Asn555Asn
M0137919 MMBENLEO_00001 1563 3 Oral 0.43 protein_coding synonymous_variant LOW 1656T>A Thr552Thr
M0137920 MMBENLEO_00001 1566 3 Oral 0.43 protein_coding synonymous_variant LOW 1653T>C Leu551Leu
M0137921 MMBENLEO_00001 1629 3 Oral 0.43 protein_coding synonymous_variant LOW 1590C>T Leu530Leu
M0137922 MMBENLEO_00001 2529 4 Oral 0.57 protein_coding synonymous_variant LOW 690C>T Phe230Phe
M0137923 MMBENLEO_00001 2706 4 Oral 0.57 protein_coding synonymous_variant LOW 513C>T Phe171Phe
M0137924 MMBENLEO_00001 2355 4 Oral 0.57 protein_coding synonymous_variant LOW 864T>C Ser288Ser
M0137925 MMBENLEO_00001 3024 3 Oral 0.43 protein_coding synonymous_variant LOW 195T>G Thr65Thr
M0137926 MMBENLEO_00001 837 3 Oral 0.43 protein_coding synonymous_variant LOW 2382T>C Ala794Ala
M0137927 MMBENLEO_00001 843 3 Oral 0.43 protein_coding synonymous_variant LOW 2376T>A Gly792Gly
M0137928 MMBENLEO_00001 1095 3 Oral 0.43 protein_coding synonymous_variant LOW 2124C>T Arg708Arg
M0137929 MMBENLEO_00001 1332 3 Oral 0.43 protein_coding synonymous_variant LOW 1887C>T Val629Val
M0137930 MMBENLEO_00001 1355 3 Oral 0.43 protein_coding missense_variant MODERATE 1864G>A Glu622Lys
M0137931 MMBENLEO_00001 1383 3 Oral 0.43 protein_coding synonymous_variant LOW 1836A>G Glu612Glu
M0137932 MMBENLEO_00001 1784 3 Oral 0.43 protein_coding missense_variant MODERATE 1435A>G Asn479Asp
M0137933 MMBENLEO_00001 1791 3 Oral 0.43 protein_coding synonymous_variant LOW 1428T>C Ile476Ile
M0137934 MMBENLEO_00001 1794 3 Oral 0.43 protein_coding synonymous_variant LOW 1425T>C Asp475Asp
M0137935 MMBENLEO_00001 1811 3 Oral 0.43 protein_coding missense_variant MODERATE 1408A>G Ile470Val
M0137936 MMBENLEO_00001 2187 3 Oral 0.43 protein_coding missense_variant MODERATE 1032T>G Asp344Glu






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