Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3317
  Reference Plasmid   MGYG000298338__MGYG000298338_41
  Reference Plasmid Size   31347
  Reference Plasmid GC Content   0.59
  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
M0135267 GEHODHOB_00024 25712 3 Oral 0.60 protein_coding synonymous_variant LOW 345T>C Ser115Ser
M0135268 GEHODHOB_00024 25799 3 Oral 0.60 protein_coding synonymous_variant LOW 258C>T Thr86Thr
M0135269 GEHODHOB_00024 25835 3 Oral 0.60 protein_coding synonymous_variant LOW 222C>T Asp74Asp
M0135270 GEHODHOB_00021 26126 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -3059T>C None
M0135271 GEHODHOB_00021 26133 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -3066A>G None
M0135272 GEHODHOB_00025 26226 3 Oral 0.60 protein_coding synonymous_variant LOW 1338C>T Val446Val
M0135273 GEHODHOB_00025 26388 3 Oral 0.60 protein_coding synonymous_variant LOW 1176C>T Gly392Gly
M0135274 GEHODHOB_00025 26445 3 Oral 0.60 protein_coding synonymous_variant LOW 1119T>C Val373Val
M0135275 GEHODHOB_00025 26451 3 Oral 0.60 protein_coding synonymous_variant LOW 1113T>C Gly371Gly
M0135276 GEHODHOB_00025 26463 3 Oral 0.60 protein_coding synonymous_variant LOW 1101T>C Ile367Ile
M0135277 GEHODHOB_00025 26601 3 Oral 0.60 protein_coding synonymous_variant LOW 963C>T Val321Val
M0135278 GEHODHOB_00025 26616 3 Oral 0.60 protein_coding synonymous_variant LOW 948T>C Gly316Gly
M0135279 GEHODHOB_00025 26625 3 Oral 0.60 protein_coding synonymous_variant LOW 939C>T Ala313Ala
M0135280 GEHODHOB_00025 26709 3 Oral 0.60 protein_coding synonymous_variant LOW 855G>C Ser285Ser
M0135281 GEHODHOB_00025 26730 3 Oral 0.60 protein_coding synonymous_variant LOW 834G>C Val278Val
M0135282 GEHODHOB_00025 26787 3 Oral 0.60 protein_coding synonymous_variant LOW 777C>T Phe259Phe
M0135283 GEHODHOB_00025 26789 3 Oral 0.60 protein_coding missense_variant MODERATE 775T>G Phe259Val
M0135284 GEHODHOB_00025 26967 3 Oral 0.60 protein_coding synonymous_variant LOW 597T>C Val199Val
M0135285 GEHODHOB_00025 26982 3 Oral 0.60 protein_coding synonymous_variant LOW 582C>T Ala194Ala
M0135286 GEHODHOB_00025 27156 3 Oral 0.60 protein_coding synonymous_variant LOW 408T>C Asn136Asn
M0135287 GEHODHOB_00025 27228 3 Oral 0.60 protein_coding synonymous_variant LOW 336T>C Phe112Phe
M0135288 GEHODHOB_00025 27345 3 Oral 0.60 protein_coding synonymous_variant LOW 219A>C Ala73Ala
M0135289 GEHODHOB_00025 27372 3 Oral 0.60 protein_coding synonymous_variant LOW 192C>T Gly64Gly
M0135290 GEHODHOB_00026 28108 3 Oral 0.60 protein_coding missense_variant MODERATE 47C>A Thr16Asn
M0135291 GEHODHOB_00026 28265 3 Oral 0.60 protein_coding synonymous_variant LOW 204T>C Cys68Cys
M0135292 GEHODHOB_00026 28271 3 Oral 0.60 protein_coding synonymous_variant LOW 210G>A Lys70Lys
M0135293 GEHODHOB_00026 28559 3 Oral 0.60 protein_coding synonymous_variant LOW 498T>G Val166Val
M0135294 GEHODHOB_00026 28599 3 Oral 0.60 protein_coding synonymous_variant LOW 538T>C Leu180Leu
M0135295 GEHODHOB_00027 29484 3 Oral 0.60 protein_coding synonymous_variant LOW 522C>T Ile174Ile
M0135296 GEHODHOB_00027 29487 3 Oral 0.60 protein_coding synonymous_variant LOW 525T>C Ser175Ser
M0135297 GEHODHOB_00027 29523 3 Oral 0.60 protein_coding synonymous_variant LOW 561T>C Ala187Ala






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
GEHODHOB_00009 QXW99157.1|GH13_29 96.6 0 1 610 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