Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3301
  Reference Plasmid   MGYG000298130__MGYG000298130_18
  Reference Plasmid Size   5070
  Reference Plasmid GC Content   0.61
  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
M0134337 EDIGGAAK_00001 1068 3 Oral 0.75 protein_coding synonymous_variant LOW 702T>C Ser234Ser
M0134338 EDIGGAAK_00001 1073 3 Oral 0.75 protein_coding synonymous_variant LOW 697T>C Leu233Leu
M0134339 EDIGGAAK_00001 1227 3 Oral 0.75 protein_coding synonymous_variant LOW 543C>G Leu181Leu
M0134340 EDIGGAAK_00001 1497 3 Oral 0.75 protein_coding synonymous_variant LOW 273T>C Thr91Thr
M0134341 EDIGGAAK_00001 2803 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -1034A>T None
M0134342 EDIGGAAK_00001 2805 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -1036C>T None
M0134343 EDIGGAAK_00004 2832 3 Oral 0.75 protein_coding missense_variant MODERATE 1433A>G His478Arg
M0134344 EDIGGAAK_00004 2926 4 Oral 1.00 protein_coding synonymous_variant LOW 1339T>C Leu447Leu
M0134345 EDIGGAAK_00004 3071 4 Oral 1.00 protein_coding synonymous_variant LOW 1194C>T Arg398Arg
M0134346 EDIGGAAK_00004 3104 3 Oral 0.75 protein_coding synonymous_variant LOW 1161C>G Thr387Thr
M0134347 EDIGGAAK_00004 3113 4 Oral 1.00 protein_coding synonymous_variant LOW 1152T>C Asn384Asn
M0134348 EDIGGAAK_00004 3134 4 Oral 1.00 protein_coding synonymous_variant LOW 1131T>C Gly377Gly
M0134349 EDIGGAAK_00004 3143 3 Oral 0.75 protein_coding synonymous_variant LOW 1122T>C Cys374Cys
M0134350 EDIGGAAK_00004 3257 4 Oral 1.00 protein_coding synonymous_variant LOW 1008G>C Val336Val
M0134351 EDIGGAAK_00004 3305 4 Oral 1.00 protein_coding synonymous_variant LOW 960G>C Ser320Ser
M0134352 EDIGGAAK_00004 3311 3 Oral 0.75 protein_coding synonymous_variant LOW 954C>T Leu318Leu
M0134353 EDIGGAAK_00004 3344 3 Oral 0.75 protein_coding synonymous_variant LOW 921C>T Ile307Ile
M0134354 EDIGGAAK_00004 3404 4 Oral 1.00 protein_coding synonymous_variant LOW 861T>C Ile287Ile
M0134355 EDIGGAAK_00004 3524 3 Oral 0.75 protein_coding synonymous_variant LOW 741A>G Ala247Ala
M0134356 EDIGGAAK_00004 3575 3 Oral 0.75 protein_coding synonymous_variant LOW 690G>A Glu230Glu
M0134357 EDIGGAAK_00004 3656 3 Oral 0.75 protein_coding synonymous_variant LOW 609A>G Val203Val
M0134358 EDIGGAAK_00004 3659 4 Oral 1.00 protein_coding synonymous_variant LOW 606A>T Arg202Arg
M0134359 EDIGGAAK_00004 3692 4 Oral 1.00 protein_coding synonymous_variant LOW 573A>G Leu191Leu
M0134360 EDIGGAAK_00004 3959 3 Oral 0.75 protein_coding synonymous_variant LOW 306C>T Gly102Gly
M0134361 EDIGGAAK_00004 3962 3 Oral 0.75 protein_coding synonymous_variant LOW 303C>T Phe101Phe
M0134362 EDIGGAAK_00004 3964 3 Oral 0.75 protein_coding missense_variant MODERATE 301T>A Phe101Ile
M0134363 EDIGGAAK_00004 3982 4 Oral 1.00 protein_coding synonymous_variant LOW 283T>C Leu95Leu
M0134364 EDIGGAAK_00005 4683 3 Oral 0.75 protein_coding synonymous_variant LOW 162A>G Glu54Glu
M0134365 EDIGGAAK_00004 2852 3 Oral 0.75 protein_coding synonymous_variant LOW 1413C>T Gly471Gly
M0134366 EDIGGAAK_00004 3308 3 Oral 0.75 protein_coding synonymous_variant LOW 957C>T Gly319Gly
M0134367 EDIGGAAK_00004 3566 3 Oral 0.75 protein_coding synonymous_variant LOW 699A>G Glu233Glu
M0134368 EDIGGAAK_00004 3580 3 Oral 0.75 protein_coding missense_variant MODERATE 685A>G Thr229Ala
M0134369 EDIGGAAK_00004 3911 3 Oral 0.75 protein_coding synonymous_variant LOW 354A>G Gly118Gly
M0134370 EDIGGAAK_00004 4058 3 Oral 0.75 protein_coding synonymous_variant LOW 207T>C Ala69Ala
M0134371 EDIGGAAK_00004 4094 3 Oral 0.75 protein_coding synonymous_variant LOW 171T>C Asp57Asp






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