Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3330
  Reference Plasmid   MGYG000298572__MGYG000298572_18
  Reference Plasmid Size   6885
  Reference Plasmid GC Content   0.42
  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
M0135479 NPMDKKNG_00001 484 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -356G>C None
M0135480 NPMDKKNG_00001 488 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -352A>T None
M0135481 NPMDKKNG_00001 489 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -351A>G None
M0135482 NPMDKKNG_00001 506 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -334C>T None
M0135483 NPMDKKNG_00001 561 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -279G>T None
M0135484 NPMDKKNG_00001 638 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -202T>C None
M0135485 NPMDKKNG_00001 696 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -144G>A None
M0135486 NPMDKKNG_00001 731 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -109T>C None
M0135487 NPMDKKNG_00001 1346 3 Oral 0.50 protein_coding synonymous_variant LOW 507A>G Ser169Ser
M0135488 NPMDKKNG_00001 1365 3 Oral 0.50 protein_coding missense_variant MODERATE 526A>G Ser176Gly
M0135489 NPMDKKNG_00001 1366 3 Oral 0.50 protein_coding missense_variant MODERATE 527G>A Ser176Asn
M0135490 NPMDKKNG_00001 1424 3 Oral 0.50 protein_coding synonymous_variant LOW 585C>G Gly195Gly
M0135491 NPMDKKNG_00001 1436 3 Oral 0.50 protein_coding synonymous_variant LOW 597G>C Gly199Gly
M0135492 NPMDKKNG_00001 1589 3 Oral 0.50 protein_coding synonymous_variant LOW 750T>C Asn250Asn
M0135493 NPMDKKNG_00001 2159 3 Oral 0.50 protein_coding synonymous_variant LOW 1320A>G Glu440Glu
M0135494 NPMDKKNG_00001 2165 3 Oral 0.50 protein_coding synonymous_variant LOW 1326A>G Leu442Leu
M0135495 NPMDKKNG_00005 3805 3 Oral 0.50 protein_coding synonymous_variant LOW 411T>A Ser137Ser
M0135496 NPMDKKNG_00005 3900 3 Oral 0.50 protein_coding synonymous_variant LOW 316T>C Leu106Leu
M0135497 NPMDKKNG_00005 3918 3 Oral 0.50 protein_coding synonymous_variant LOW 298T>C Leu100Leu
M0135498 NPMDKKNG_00005 3935 3 Oral 0.50 protein_coding missense_variant MODERATE 281T>G Val94Gly
M0135499 NPMDKKNG_00005 4031 4 Oral 0.67 protein_coding missense_variant MODERATE 185C>A Ala62Asp
M0135500 NPMDKKNG_00005 4056 3 Oral 0.50 protein_coding synonymous_variant LOW 160T>C Leu54Leu
M0135501 NPMDKKNG_00005 4150 4 Oral 0.67 protein_coding synonymous_variant LOW 66T>C Ser22Ser
M0135502 NPMDKKNG_00005 4156 3 Oral 0.50 protein_coding synonymous_variant LOW 60G>T Val20Val
M0135503 NPMDKKNG_00006 4429 3 Oral 0.50 protein_coding synonymous_variant LOW 114C>T Asn38Asn
M0135504 NPMDKKNG_00006 4441 3 Oral 0.50 protein_coding synonymous_variant LOW 126T>A Ala42Ala
M0135505 NPMDKKNG_00006 4711 4 Oral 0.67 protein_coding synonymous_variant LOW 396T>C Asp132Asp
M0135506 NPMDKKNG_00006 4744 4 Oral 0.67 protein_coding synonymous_variant LOW 429T>C His143His
M0135507 NPMDKKNG_00006 4765 4 Oral 0.67 protein_coding synonymous_variant LOW 450A>G Thr150Thr
M0135508 NPMDKKNG_00006 4771 4 Oral 0.67 protein_coding synonymous_variant LOW 456T>C Ser152Ser
M0135509 NPMDKKNG_00006 5065 4 Oral 0.67 protein_coding synonymous_variant LOW 750T>C Gly250Gly
M0135510 NPMDKKNG_00002 5263 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -2566T>C None
M0135511 NPMDKKNG_00007 5311 3 Oral 0.50 protein_coding synonymous_variant LOW 1488C>T Gly496Gly
M0135512 NPMDKKNG_00007 5545 3 Oral 0.50 protein_coding synonymous_variant LOW 1254G>A Val418Val
M0135513 NPMDKKNG_00007 5924 3 Oral 0.50 protein_coding missense_variant MODERATE 875A>C Asn292Thr
M0135514 NPMDKKNG_00007 6040 4 Oral 0.67 protein_coding synonymous_variant LOW 759G>A Leu253Leu
M0135515 NPMDKKNG_00007 6079 3 Oral 0.50 protein_coding synonymous_variant LOW 720C>T Arg240Arg
M0135516 NPMDKKNG_00007 6114 3 Oral 0.50 protein_coding missense_variant MODERATE 685A>G Thr229Ala
M0135517 NPMDKKNG_00007 6118 3 Oral 0.50 protein_coding synonymous_variant LOW 681T>C Asp227Asp
M0135518 NPMDKKNG_00007 6139 4 Oral 0.67 protein_coding synonymous_variant LOW 660T>C Arg220Arg
M0135519 NPMDKKNG_00007 6352 4 Oral 0.67 protein_coding missense_variant MODERATE 447A>T Glu149Asp
M0135520 NPMDKKNG_00007 6382 4 Oral 0.67 protein_coding missense_variant MODERATE 417A>T Arg139Ser
M0135521 NPMDKKNG_00007 6457 4 Oral 0.67 protein_coding synonymous_variant LOW 342T>C Gly114Gly
M0135522 NPMDKKNG_00007 6491 4 Oral 0.67 protein_coding missense_variant MODERATE 308T>C Ile103Thr
M0135523 NPMDKKNG_00007 6575 3 Oral 0.50 protein_coding missense_variant MODERATE 224G>A Ser75Asn
M0135524 NPMDKKNG_00002 5247 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -2550T>C 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