Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2438
  Reference Plasmid   1111525849768046_bin.37__k141_3306
  Reference Plasmid Size   11553
  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
M0125844 EHJOCCDP_00004 446 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4242A>T None
M0125845 EHJOCCDP_00004 459 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4229A>G None
M0125846 EHJOCCDP_00004 464 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4224T>G None
M0125847 EHJOCCDP_00004 488 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4200T>C None
M0125848 EHJOCCDP_00004 491 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4197T>A None
M0125849 EHJOCCDP_00004 539 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4149T>C None
M0125850 EHJOCCDP_00004 557 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4131A>G None
M0125851 EHJOCCDP_00004 677 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4011T>C None
M0125852 EHJOCCDP_00004 680 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4008C>T None
M0125853 EHJOCCDP_00004 710 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3978A>G None
M0125854 EHJOCCDP_00004 719 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3969A>G None
M0125855 EHJOCCDP_00004 728 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3960G>A None
M0125856 EHJOCCDP_00004 811 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3877C>T None
M0125857 EHJOCCDP_00004 824 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3864A>G None
M0125858 EHJOCCDP_00004 833 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3855T>C None
M0125859 EHJOCCDP_00004 845 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3843T>C None
M0125860 EHJOCCDP_00001 1124 3 Oral 0.50 protein_coding missense_variant MODERATE 38A>G Glu13Gly
M0125861 EHJOCCDP_00001 1514 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -353C>T None
M0125862 EHJOCCDP_00001 1614 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -453G>C None
M0125863 EHJOCCDP_00001 1948 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -787A>G None
M0125864 EHJOCCDP_00001 2106 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -945C>A None
M0125865 EHJOCCDP_00001 2108 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -947T>C None
M0125866 EHJOCCDP_00001 2179 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1018A>C None
M0125867 EHJOCCDP_00001 2331 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1170T>C None
M0125868 EHJOCCDP_00001 2364 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1203C>G None
M0125869 EHJOCCDP_00001 2448 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1287C>T None
M0125870 EHJOCCDP_00001 2482 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1321G>A None
M0125871 EHJOCCDP_00001 2504 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1343A>T None
M0125872 EHJOCCDP_00001 2585 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1424G>C None
M0125873 EHJOCCDP_00001 4973 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3812G>A None
M0125874 EHJOCCDP_00001 4976 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -3815T>A None
M0125875 EHJOCCDP_00005 5034 4 Oral 0.67 protein_coding synonymous_variant LOW 942T>A Thr314Thr
M0125876 EHJOCCDP_00005 5037 4 Oral 0.67 protein_coding synonymous_variant LOW 939G>A Lys313Lys
M0125877 EHJOCCDP_00005 5040 4 Oral 0.67 protein_coding synonymous_variant LOW 936A>C Arg312Arg
M0125878 EHJOCCDP_00005 5070 4 Oral 0.67 protein_coding synonymous_variant LOW 906A>G Thr302Thr
M0125879 EHJOCCDP_00005 5133 3 Oral 0.50 protein_coding synonymous_variant LOW 843T>C Thr281Thr
M0125880 EHJOCCDP_00005 5667 3 Oral 0.50 protein_coding synonymous_variant LOW 309T>C Ile103Ile
M0125881 EHJOCCDP_00005 5670 4 Oral 0.67 protein_coding synonymous_variant LOW 306C>T Asn102Asn
M0125882 EHJOCCDP_00005 5769 4 Oral 0.67 protein_coding synonymous_variant LOW 207C>T Ala69Ala
M0125883 EHJOCCDP_00005 5793 3 Oral 0.50 protein_coding synonymous_variant LOW 183C>T Asn61Asn
M0125884 EHJOCCDP_00006 6064 5 Oral 0.83 protein_coding synonymous_variant LOW 1785A>G Val595Val
M0125885 EHJOCCDP_00006 6070 5 Oral 0.83 protein_coding synonymous_variant LOW 1779A>G Glu593Glu
M0125886 EHJOCCDP_00006 6136 5 Oral 0.83 protein_coding synonymous_variant LOW 1713C>T Leu571Leu
M0125887 EHJOCCDP_00006 6157 5 Oral 0.83 protein_coding synonymous_variant LOW 1692T>C Ile564Ile
M0125888 EHJOCCDP_00006 6169 3 Oral 0.50 protein_coding synonymous_variant LOW 1680G>A Ser560Ser
M0125889 EHJOCCDP_00006 6268 3 Oral 0.50 protein_coding missense_variant MODERATE 1581G>A Met527Ile
M0125890 EHJOCCDP_00006 6718 4 Oral 0.67 protein_coding synonymous_variant LOW 1131G>A Lys377Lys
M0125891 EHJOCCDP_00006 7034 5 Oral 0.83 protein_coding missense_variant MODERATE 815G>A Ser272Asn
M0125892 EHJOCCDP_00006 7174 5 Oral 0.83 protein_coding synonymous_variant LOW 675T>A Val225Val
M0125893 EHJOCCDP_00006 7378 5 Oral 0.83 protein_coding synonymous_variant LOW 471A>G Ser157Ser
M0125894 EHJOCCDP_00006 7384 3 Oral 0.50 protein_coding synonymous_variant LOW 465A>G Leu155Leu
M0125895 EHJOCCDP_00006 7759 5 Oral 0.83 protein_coding synonymous_variant LOW 90T>C Gly30Gly
M0125896 EHJOCCDP_00002 7892 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4440T>G None
M0125897 EHJOCCDP_00002 8184 5 Oral 0.83 protein_coding upstream_gene_variant MODIFIER -4732T>C None
M0125898 EHJOCCDP_00007 8308 5 Oral 0.83 protein_coding synonymous_variant LOW 1569A>G Glu523Glu
M0125899 EHJOCCDP_00007 8317 4 Oral 0.67 protein_coding synonymous_variant LOW 1560C>T Asp520Asp
M0125900 EHJOCCDP_00007 8977 3 Oral 0.50 protein_coding synonymous_variant LOW 900T>A Thr300Thr
M0125901 EHJOCCDP_00007 9169 3 Oral 0.50 protein_coding synonymous_variant LOW 708T>A Ala236Ala
M0125902 EHJOCCDP_00007 9202 4 Oral 0.67 protein_coding synonymous_variant LOW 675A>G Glu225Glu
M0125903 EHJOCCDP_00007 9211 5 Oral 0.83 protein_coding synonymous_variant LOW 666T>G Val222Val
M0125904 EHJOCCDP_00007 9283 5 Oral 0.83 protein_coding synonymous_variant LOW 594C>T Ala198Ala
M0125905 EHJOCCDP_00007 9301 5 Oral 0.83 protein_coding synonymous_variant LOW 576T>C Cys192Cys
M0125906 EHJOCCDP_00005 10240 5 Oral 0.83 protein_coding upstream_gene_variant MODIFIER -4265A>C None
M0125907 EHJOCCDP_00005 10264 5 Oral 0.83 protein_coding upstream_gene_variant MODIFIER -4289A>G None
M0125908 EHJOCCDP_00005 10333 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -4358A>T None
M0125909 EHJOCCDP_00005 10394 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -4419T>C None
M0125910 EHJOCCDP_00005 10492 5 Oral 0.83 protein_coding upstream_gene_variant MODIFIER -4517T>C None
M0125911 EHJOCCDP_00005 10603 5 Oral 0.83 protein_coding upstream_gene_variant MODIFIER -4628A>G None
M0125912 EHJOCCDP_00005 10777 5 Oral 0.83 protein_coding upstream_gene_variant MODIFIER -4802A>G None
M0125913 EHJOCCDP_00005 10887 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4912G>T None
M0125914 EHJOCCDP_00005 10909 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -4934A>G None
M0125915 EHJOCCDP_00005 10924 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4949T>C None
M0125916 EHJOCCDP_00006 11020 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3172G>A None
M0125917 EHJOCCDP_00006 11156 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3308C>T None
M0125918 EHJOCCDP_00006 11236 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -3388A>G None
M0125919 EHJOCCDP_00006 11251 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -3403C>G None
M0125920 EHJOCCDP_00006 11413 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -3565C>G None
M0125921 EHJOCCDP_00006 11435 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -3587G>T None
M0125922 EHJOCCDP_00006 11443 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -3595T>G None
M0125923 EHJOCCDP_00005 5628 3 Oral 0.50 protein_coding synonymous_variant LOW 348A>G Leu116Leu
M0125924 EHJOCCDP_00006 6145 3 Oral 0.50 protein_coding synonymous_variant LOW 1704T>A Ile568Ile
M0125925 EHJOCCDP_00006 6186 4 Oral 0.67 protein_coding missense_variant MODERATE 1663T>A Leu555Ile
M0125926 EHJOCCDP_00006 6190 4 Oral 0.67 protein_coding synonymous_variant LOW 1659C>T Gly553Gly
M0125927 EHJOCCDP_00006 6796 3 Oral 0.50 protein_coding synonymous_variant LOW 1053C>T Asp351Asp
M0125928 EHJOCCDP_00006 6958 3 Oral 0.50 protein_coding synonymous_variant LOW 891C>A Arg297Arg
M0125929 EHJOCCDP_00006 6961 3 Oral 0.50 protein_coding synonymous_variant LOW 888A>G Lys296Lys
M0125930 EHJOCCDP_00006 7553 3 Oral 0.50 protein_coding missense_variant MODERATE 296G>A Arg99His
M0125931 EHJOCCDP_00006 7582 4 Oral 0.67 protein_coding synonymous_variant LOW 267T>C Ser89Ser
M0125932 EHJOCCDP_00002 7864 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -4412C>A None
M0125933 EHJOCCDP_00005 10795 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -4820A>T None
M0125934 EHJOCCDP_00006 7066 3 Oral 0.50 protein_coding synonymous_variant LOW 783A>T Ala261Ala






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