Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2398
  Reference Plasmid   1111525849768046_bin.37__k141_176824
  Reference Plasmid Size   10096
  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
M0121919 MPBCLBJA_00007 2800 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -1993T>C None
M0121920 MPBCLBJA_00004 2879 3 Oral 0.43 protein_coding synonymous_variant LOW 648T>C Asp216Asp
M0121921 MPBCLBJA_00004 2972 3 Oral 0.43 protein_coding synonymous_variant LOW 555C>T Asp185Asp
M0121922 MPBCLBJA_00004 3068 3 Oral 0.43 protein_coding synonymous_variant LOW 459G>A Ala153Ala
M0121923 MPBCLBJA_00004 3101 3 Oral 0.43 protein_coding synonymous_variant LOW 426G>A Thr142Thr
M0121924 MPBCLBJA_00004 3308 3 Oral 0.43 protein_coding synonymous_variant LOW 219G>A Gln73Gln
M0121925 MPBCLBJA_00004 3470 3 Oral 0.43 protein_coding missense_variant MODERATE 57G>C Lys19Asn
M0121926 MPBCLBJA_00004 3471 3 Oral 0.43 protein_coding missense_variant MODERATE 56A>G Lys19Arg
M0121927 MPBCLBJA_00005 3688 3 Oral 0.43 protein_coding synonymous_variant LOW 622C>T Leu208Leu
M0121928 MPBCLBJA_00005 3710 4 Oral 0.57 protein_coding synonymous_variant LOW 600T>C Phe200Phe
M0121929 MPBCLBJA_00005 3752 4 Oral 0.57 protein_coding synonymous_variant LOW 558G>A Lys186Lys
M0121930 MPBCLBJA_00005 3764 3 Oral 0.43 protein_coding synonymous_variant LOW 546T>C Tyr182Tyr
M0121931 MPBCLBJA_00005 3980 3 Oral 0.43 protein_coding synonymous_variant LOW 330C>T Ser110Ser
M0121932 MPBCLBJA_00005 4052 4 Oral 0.57 protein_coding synonymous_variant LOW 258A>C Ala86Ala
M0121933 MPBCLBJA_00005 4085 4 Oral 0.57 protein_coding synonymous_variant LOW 225C>G Leu75Leu
M0121934 MPBCLBJA_00006 4400 4 Oral 0.57 protein_coding synonymous_variant LOW 294C>T Asp98Asp
M0121935 MPBCLBJA_00006 4451 3 Oral 0.43 protein_coding synonymous_variant LOW 243T>C Ala81Ala
M0121936 MPBCLBJA_00006 4631 3 Oral 0.43 protein_coding synonymous_variant LOW 63T>C Asn21Asn
M0121937 MPBCLBJA_00007 5122 3 Oral 0.43 protein_coding synonymous_variant LOW 330T>C Asp110Asp
M0121938 MPBCLBJA_00004 5282 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -1756T>C None
M0121939 MPBCLBJA_00004 5337 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -1811A>T None
M0121940 MPBCLBJA_00008 5375 3 Oral 0.43 protein_coding synonymous_variant LOW 354A>G Glu118Glu
M0121941 MPBCLBJA_00009 6060 3 Oral 0.43 protein_coding synonymous_variant LOW 351G>A Glu117Glu
M0121942 MPBCLBJA_00002 1694 3 Oral 0.43 protein_coding synonymous_variant LOW 393G>T Gly131Gly
M0121943 MPBCLBJA_00002 1718 3 Oral 0.43 protein_coding synonymous_variant LOW 417T>A Leu139Leu
M0121944 MPBCLBJA_00002 1864 3 Oral 0.43 protein_coding missense_variant MODERATE 563T>C Val188Ala
M0121945 MPBCLBJA_00002 1952 3 Oral 0.43 protein_coding synonymous_variant LOW 651T>A Ile217Ile
M0121946 MPBCLBJA_00002 1958 3 Oral 0.43 protein_coding synonymous_variant LOW 657A>T Ile219Ile
M0121947 MPBCLBJA_00002 1968 3 Oral 0.43 protein_coding missense_variant MODERATE 667A>G Ile223Val
M0121948 MPBCLBJA_00002 1982 3 Oral 0.43 protein_coding synonymous_variant LOW 681G>A Ala227Ala
M0121949 MPBCLBJA_00002 1991 3 Oral 0.43 protein_coding synonymous_variant LOW 690G>T Ala230Ala
M0121950 MPBCLBJA_00002 1995 3 Oral 0.43 protein_coding missense_variant MODERATE 694T>A Leu232Met
M0121951 MPBCLBJA_00003 2165 3 Oral 0.43 protein_coding synonymous_variant LOW 126A>G Gln42Gln
M0121952 MPBCLBJA_00003 2166 3 Oral 0.43 protein_coding missense_variant MODERATE 127A>T Ser43Cys
M0121953 MPBCLBJA_00003 2167 3 Oral 0.43 protein_coding missense_variant MODERATE 128G>C Ser43Thr
M0121954 MPBCLBJA_00003 2169 3 Oral 0.43 protein_coding missense_variant MODERATE 130G>A Ala44Thr
M0121955 MPBCLBJA_00007 4969 4 Oral 0.57 protein_coding synonymous_variant LOW 177T>C Ala59Ala






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