Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3304
  Reference Plasmid   MGYG000298186__MGYG000298186_215
  Reference Plasmid Size   3089
  Reference Plasmid GC Content   0.39
  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
M0134430 IEMBDKOP_00001 1456 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -947A>C None
M0134431 IEMBDKOP_00001 1480 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -971T>C None
M0134432 IEMBDKOP_00001 1557 5 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -1048T>C None
M0134433 IEMBDKOP_00001 1561 5 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -1052G>A None
M0134434 IEMBDKOP_00001 1624 5 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -1115A>G None
M0134435 IEMBDKOP_00003 2085 4 Oral 0.80 protein_coding synonymous_variant LOW 237T>C Thr79Thr
M0134436 IEMBDKOP_00003 2097 4 Oral 0.80 protein_coding synonymous_variant LOW 249G>A Ala83Ala
M0134437 IEMBDKOP_00003 2100 3 Oral 0.60 protein_coding synonymous_variant LOW 252A>G Gln84Gln
M0134438 IEMBDKOP_00003 2232 4 Oral 0.80 protein_coding synonymous_variant LOW 384G>A Gln128Gln
M0134439 IEMBDKOP_00003 2238 4 Oral 0.80 protein_coding synonymous_variant LOW 390G>A Leu130Leu
M0134440 IEMBDKOP_00003 2247 4 Oral 0.80 protein_coding synonymous_variant LOW 399T>G Ser133Ser
M0134441 IEMBDKOP_00003 2256 3 Oral 0.60 protein_coding missense_variant MODERATE 408A>G Ile136Met
M0134442 IEMBDKOP_00003 2259 4 Oral 0.80 protein_coding synonymous_variant LOW 411A>G Glu137Glu
M0134443 IEMBDKOP_00003 2270 3 Oral 0.60 protein_coding missense_variant MODERATE 422A>G Lys141Arg
M0134444 IEMBDKOP_00001 2275 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1766A>G None
M0134445 IEMBDKOP_00001 2322 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1813C>T None
M0134446 IEMBDKOP_00001 2324 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1815G>C None
M0134447 IEMBDKOP_00001 2337 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -1828C>T None
M0134448 IEMBDKOP_00001 2365 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1856A>C None
M0134449 IEMBDKOP_00001 2373 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1864C>T None
M0134450 IEMBDKOP_00001 2376 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1867C>T None
M0134451 IEMBDKOP_00001 2379 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -1870T>A None
M0134452 IEMBDKOP_00001 2391 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -1882A>G None
M0134453 IEMBDKOP_00001 2392 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -1883T>C None
M0134454 IEMBDKOP_00001 2499 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -1990C>T None
M0134455 IEMBDKOP_00001 2544 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -2035T>C None
M0134456 IEMBDKOP_00001 2667 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -2158G>A None
M0134457 IEMBDKOP_00001 2671 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -2162C>T None
M0134458 IEMBDKOP_00001 2673 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -2164T>G None
M0134459 IEMBDKOP_00001 2815 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -2306C>T None
M0134460 IEMBDKOP_00001 2817 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -2308G>T None
M0134461 IEMBDKOP_00001 2994 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -2485C>T None
M0134462 IEMBDKOP_00003 1926 3 Oral 0.60 protein_coding synonymous_variant LOW 78C>T Val26Val
M0134463 IEMBDKOP_00003 1930 3 Oral 0.60 protein_coding synonymous_variant LOW 82A>C Arg28Arg
M0134464 IEMBDKOP_00003 1935 3 Oral 0.60 protein_coding synonymous_variant LOW 87A>G Leu29Leu
M0134465 IEMBDKOP_00003 2151 3 Oral 0.60 protein_coding synonymous_variant LOW 303T>A Arg101Arg
M0134466 IEMBDKOP_00001 2284 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1775T>G None
M0134467 IEMBDKOP_00001 2294 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1785T>C None
M0134468 IEMBDKOP_00001 2295 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1786C>T None
M0134469 IEMBDKOP_00001 2296 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1787A>C None
M0134470 IEMBDKOP_00001 2505 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1996A>T None
M0134471 IEMBDKOP_00002 896 3 Oral 0.60 protein_coding synonymous_variant LOW 384G>A Leu128Leu
M0134472 IEMBDKOP_00002 901 3 Oral 0.60 protein_coding synonymous_variant LOW 379T>C Leu127Leu
M0134473 IEMBDKOP_00002 917 3 Oral 0.60 protein_coding synonymous_variant LOW 363T>C Thr121Thr
M0134474 IEMBDKOP_00002 983 3 Oral 0.60 protein_coding synonymous_variant LOW 297A>G Gln99Gln
M0134475 IEMBDKOP_00002 1055 3 Oral 0.60 protein_coding synonymous_variant LOW 225C>T Phe75Phe
M0134476 IEMBDKOP_00002 1106 3 Oral 0.60 protein_coding synonymous_variant LOW 174T>C Leu58Leu
M0134477 IEMBDKOP_00002 1181 3 Oral 0.60 protein_coding synonymous_variant LOW 99T>A Arg33Arg
M0134478 IEMBDKOP_00001 1310 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -801T>C None
M0134479 IEMBDKOP_00001 1545 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1036G>A None






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