Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1343
  Reference Plasmid   NZ_LN835295.1
  Reference Plasmid Size   89692
  Reference Plasmid GC Content   0.32
  Reference Plasmid Mobility Type   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
M0206830 DEJOBHFA_00053 54283 5 Gut 0.26 protein_coding upstream_gene_variant MODIFIER -4379A>C None
M0206831 DEJOBHFA_00053 54296 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -4392A>T None
M0206832 DEJOBHFA_00053 54297 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -4393G>A None
M0206833 DEJOBHFA_00053 54302 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -4398A>T None
M0206834 DEJOBHFA_00056 54376 7 Gut 0.37 protein_coding synonymous_variant LOW 1188C>T Leu396Leu
M0206835 DEJOBHFA_00056 54517 7 Gut 0.37 protein_coding synonymous_variant LOW 1047T>C Tyr349Tyr
M0206836 DEJOBHFA_00056 54616 7 Gut 0.37 protein_coding synonymous_variant LOW 948T>G Gly316Gly
M0206837 DEJOBHFA_00056 54730 3 Gut 0.16 protein_coding synonymous_variant LOW 834C>T Ala278Ala
M0206838 DEJOBHFA_00056 54754 5 Gut 0.26 protein_coding synonymous_variant LOW 810C>T Arg270Arg
M0206839 DEJOBHFA_00056 54786 3 Gut 0.16 protein_coding missense_variant MODERATE 778A>G Ile260Val
M0206840 DEJOBHFA_00056 54787 3 Gut 0.16 protein_coding synonymous_variant LOW 777C>T Tyr259Tyr
M0206841 DEJOBHFA_00056 54802 3 Gut 0.16 protein_coding synonymous_variant LOW 762C>T Ser254Ser
M0206842 DEJOBHFA_00056 54805 4 Gut 0.21 protein_coding synonymous_variant LOW 759C>T Asp253Asp
M0206843 DEJOBHFA_00056 54895 6 Gut 0.32 protein_coding synonymous_variant LOW 669A>G Thr223Thr
M0206844 DEJOBHFA_00056 54910 3 Gut 0.16 protein_coding synonymous_variant LOW 654T>C Val218Val
M0206845 DEJOBHFA_00056 55099 3 Gut 0.16 protein_coding synonymous_variant LOW 465A>T Ser155Ser
M0206846 DEJOBHFA_00056 55183 7 Gut 0.37 protein_coding synonymous_variant LOW 381A>G Val127Val
M0206847 DEJOBHFA_00056 55345 6 Gut 0.32 protein_coding synonymous_variant LOW 219A>C Ala73Ala
M0206848 DEJOBHFA_00056 55612 6 Gut 0.32 protein_coding upstream_gene_variant MODIFIER -49T>A None
M0206849 DEJOBHFA_00057 55679 5 Gut 0.26 protein_coding synonymous_variant LOW 15T>C Asn5Asn
M0206850 DEJOBHFA_00057 55920 6 Gut 0.32 protein_coding missense_variant MODERATE 256T>C Phe86Leu
M0206851 DEJOBHFA_00056 56242 6 Gut 0.32 protein_coding upstream_gene_variant MODIFIER -679A>G None
M0206852 DEJOBHFA_00056 56245 5 Gut 0.26 protein_coding upstream_gene_variant MODIFIER -682T>A None
M0206853 DEJOBHFA_00056 56247 6 Gut 0.32 protein_coding upstream_gene_variant MODIFIER -684A>C None
M0206854 DEJOBHFA_00058 56252 6 Gut 0.32 protein_coding synonymous_variant LOW 246T>A Ala82Ala
M0206855 DEJOBHFA_00058 56260 6 Gut 0.32 protein_coding missense_variant MODERATE 238G>A Glu80Lys
M0206856 DEJOBHFA_00059 56596 6 Gut 0.32 protein_coding missense_variant MODERATE 317A>G Asp106Gly
M0206857 DEJOBHFA_00059 56619 5 Gut 0.26 protein_coding synonymous_variant LOW 294T>C Leu98Leu
M0206858 DEJOBHFA_00059 56883 4 Gut 0.21 protein_coding synonymous_variant LOW 30C>T Val10Val
M0206859 DEJOBHFA_00059 56900 6 Gut 0.32 protein_coding missense_variant MODERATE 13G>A Ala5Thr
M0206860 DEJOBHFA_00056 57082 6 Gut 0.32 protein_coding upstream_gene_variant MODIFIER -1519G>A None
M0206861 DEJOBHFA_00056 57173 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -1610T>C None
M0206862 DEJOBHFA_00056 57185 5 Gut 0.26 protein_coding upstream_gene_variant MODIFIER -1622A>G None
M0206863 DEJOBHFA_00056 57186 5 Gut 0.26 protein_coding upstream_gene_variant MODIFIER -1623T>C None
M0206864 DEJOBHFA_00061 57822 4 Gut 0.21 protein_coding missense_variant MODERATE 140G>A Arg47Gln
M0206865 DEJOBHFA_00061 57831 4 Gut 0.21 protein_coding missense_variant MODERATE 131T>C Leu44Pro
M0206866 DEJOBHFA_00061 57856 4 Gut 0.21 protein_coding missense_variant MODERATE 106C>A Leu36Ile
M0206867 DEJOBHFA_00061 57887 4 Gut 0.21 protein_coding synonymous_variant LOW 75G>A Ser25Ser
M0206868 DEJOBHFA_00061 57938 3 Gut 0.16 protein_coding synonymous_variant LOW 24T>C Asp8Asp
M0206869 DEJOBHFA_00056 58014 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -2451T>C None
M0206870 DEJOBHFA_00056 58015 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -2452A>G None
M0206871 DEJOBHFA_00056 58028 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -2465C>T None
M0206872 DEJOBHFA_00056 58029 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -2466A>G None
M0206873 DEJOBHFA_00056 58036 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -2473T>C None
M0206874 DEJOBHFA_00062 58163 4 Gut 0.21 protein_coding synonymous_variant LOW 51C>T Ile17Ile
M0206875 DEJOBHFA_00062 58241 4 Gut 0.21 protein_coding synonymous_variant LOW 129T>G Gly43Gly
M0206876 DEJOBHFA_00062 58292 4 Gut 0.21 protein_coding synonymous_variant LOW 180T>C Ser60Ser
M0206877 DEJOBHFA_00062 58322 4 Gut 0.21 protein_coding synonymous_variant LOW 210C>T Asn70Asn
M0206878 DEJOBHFA_00062 58337 4 Gut 0.21 protein_coding synonymous_variant LOW 225A>G Gln75Gln
M0206879 DEJOBHFA_00062 58379 4 Gut 0.21 protein_coding synonymous_variant LOW 267T>C Cys89Cys
M0206880 DEJOBHFA_00062 58433 4 Gut 0.21 protein_coding synonymous_variant LOW 321T>C Ala107Ala
M0206881 DEJOBHFA_00056 58498 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -2935G>A None
M0206882 DEJOBHFA_00056 58500 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -2937A>T None
M0206883 DEJOBHFA_00063 58533 3 Gut 0.16 protein_coding synonymous_variant LOW 318T>C Ser106Ser
M0206884 DEJOBHFA_00063 58536 3 Gut 0.16 protein_coding synonymous_variant LOW 315T>C Phe105Phe
M0206885 DEJOBHFA_00056 54385 5 Gut 0.26 protein_coding synonymous_variant LOW 1179A>G Arg393Arg
M0206886 DEJOBHFA_00056 54610 5 Gut 0.26 protein_coding synonymous_variant LOW 954C>T Tyr318Tyr
M0206887 DEJOBHFA_00056 54844 4 Gut 0.21 protein_coding synonymous_variant LOW 720A>G Ala240Ala
M0206888 DEJOBHFA_00056 55179 4 Gut 0.21 protein_coding synonymous_variant LOW 385T>C Leu129Leu
M0206889 DEJOBHFA_00057 55712 3 Gut 0.16 protein_coding missense_variant MODERATE 48G>C Leu16Phe
M0206890 DEJOBHFA_00056 56234 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -671G>A None
M0206891 DEJOBHFA_00058 56270 3 Gut 0.16 protein_coding synonymous_variant LOW 228A>G Val76Val
M0206892 DEJOBHFA_00059 56697 5 Gut 0.26 protein_coding synonymous_variant LOW 216T>C Tyr72Tyr
M0206893 DEJOBHFA_00059 56727 5 Gut 0.26 protein_coding synonymous_variant LOW 186A>G Thr62Thr
M0206894 DEJOBHFA_00056 57138 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -1575A>G None
M0206895 DEJOBHFA_00056 57314 4 Gut 0.21 protein_coding upstream_gene_variant MODIFIER -1751G>T None
M0206896 DEJOBHFA_00056 57329 3 Gut 0.16 protein_coding upstream_gene_variant MODIFIER -1766A>G None
M0206897 DEJOBHFA_00060 57370 4 Gut 0.21 protein_coding synonymous_variant LOW 348G>A Glu116Glu
M0206898 DEJOBHFA_00060 57383 4 Gut 0.21 protein_coding missense_variant MODERATE 335G>A Arg112Gln
M0206899 DEJOBHFA_00060 57393 4 Gut 0.21 protein_coding missense_variant MODERATE 325A>G Asn109Asp
M0206900 DEJOBHFA_00060 57451 3 Gut 0.16 protein_coding missense_variant MODERATE 267T>A Asp89Glu
M0206901 DEJOBHFA_00060 57459 3 Gut 0.16 protein_coding missense_variant MODERATE 259T>G Phe87Val
M0206902 DEJOBHFA_00060 57462 3 Gut 0.16 protein_coding missense_variant MODERATE 256G>A Glu86Lys
M0206903 DEJOBHFA_00060 57515 3 Gut 0.16 protein_coding missense_variant MODERATE 203T>C Val68Ala
M0206904 DEJOBHFA_00060 57553 3 Gut 0.16 protein_coding synonymous_variant LOW 165C>T Gly55Gly
M0206905 DEJOBHFA_00060 57565 3 Gut 0.16 protein_coding synonymous_variant LOW 153A>G Gln51Gln
M0206906 DEJOBHFA_00060 57640 3 Gut 0.16 protein_coding synonymous_variant LOW 78A>G Lys26Lys
M0206907 DEJOBHFA_00060 57643 3 Gut 0.16 protein_coding synonymous_variant LOW 75A>C Gly25Gly
M0206908 DEJOBHFA_00060 57657 3 Gut 0.16 protein_coding missense_variant MODERATE 61A>G Asn21Asp
M0206909 DEJOBHFA_00060 57661 3 Gut 0.16 protein_coding synonymous_variant LOW 57T>C Asp19Asp
M0206910 DEJOBHFA_00061 57746 3 Gut 0.16 protein_coding synonymous_variant LOW 216G>A Leu72Leu
M0206911 DEJOBHFA_00061 57806 3 Gut 0.16 protein_coding synonymous_variant LOW 156T>A Arg52Arg
M0206912 DEJOBHFA_00061 57809 3 Gut 0.16 protein_coding synonymous_variant LOW 153G>A Lys51Lys
M0206913 DEJOBHFA_00061 57818 3 Gut 0.16 protein_coding synonymous_variant LOW 144G>A Ala48Ala






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
DEJOBHFA_00032 CRG98291.1|GH73 100 1.75e-222 1 298 1 1
DEJOBHFA_00045 CRG98303.1|GT44 100 0 1 1779 1 1
DEJOBHFA_00067 CRG98325.1|GH23 100 6.2e-237 1 335 1 1





        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
DEJOBHFA_00024 3.A.7.14.2 98.4 4.8e-132 16 266 0.9436 0.8311 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DEJOBHFA_00026 3.A.7.14.2 77.3 7.9e-140 1 331 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DEJOBHFA_00028 3.A.7.14.2 94.7 9.6e-192 1 358 1.0000 1.1854 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DEJOBHFA_00031 3.A.7.14.2 96.7 0 3 841 0.9976 2.7781 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DEJOBHFA_00032 3.A.7.14.2 99 5.7e-174 1 295 0.9899 0.9768 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DEJOBHFA_00034 3.A.7.14.2 94.4 0 1 832 1.0000 2.7517 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DEJOBHFA_00036 3.A.7.14.2 97.1 1.6e-134 1 242 0.9837 0.8013 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
DEJOBHFA_00045 1.C.57.1.5 97.5 0 1 1650 0.9275 0.9994 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.57 The Clostridial Cytotoxin (CCT) Family
DEJOBHFA_00046 1.E.27.1.8 100 1.4e-29 1 65 1.0000 1.0000 1 Channels/Pores 1.E Holins 1.E.27 The BhlA Holin (BhlA Holin) Family