Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3350
  Reference Plasmid   MGYG000298844__MGYG000298844_123
  Reference Plasmid Size   5889
  Reference Plasmid GC Content   0.41
  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
M0136451 JNJMEFDC_00001 965 3 Oral 0.60 protein_coding synonymous_variant LOW 960A>G Glu320Glu
M0136452 JNJMEFDC_00001 968 3 Oral 0.60 protein_coding synonymous_variant LOW 963A>T Ile321Ile
M0136453 JNJMEFDC_00001 998 3 Oral 0.60 protein_coding synonymous_variant LOW 993C>A Arg331Arg
M0136454 JNJMEFDC_00001 1007 3 Oral 0.60 protein_coding synonymous_variant LOW 1002A>G Leu334Leu
M0136455 JNJMEFDC_00001 1061 3 Oral 0.60 protein_coding synonymous_variant LOW 1056A>G Gln352Gln
M0136456 JNJMEFDC_00001 1307 3 Oral 0.60 protein_coding synonymous_variant LOW 1302T>G Leu434Leu
M0136457 JNJMEFDC_00001 1532 3 Oral 0.60 protein_coding synonymous_variant LOW 1527C>T Asn509Asn
M0136458 JNJMEFDC_00001 1622 3 Oral 0.60 protein_coding synonymous_variant LOW 1617T>C Phe539Phe
M0136459 JNJMEFDC_00001 1658 3 Oral 0.60 protein_coding synonymous_variant LOW 1653C>T Asn551Asn
M0136460 JNJMEFDC_00003 2231 3 Oral 0.60 protein_coding missense_variant MODERATE 47T>C Val16Ala
M0136461 JNJMEFDC_00003 2334 3 Oral 0.60 protein_coding synonymous_variant LOW 150A>G Ser50Ser
M0136462 JNJMEFDC_00003 2391 3 Oral 0.60 protein_coding synonymous_variant LOW 207A>G Gln69Gln
M0136463 JNJMEFDC_00003 2547 3 Oral 0.60 protein_coding synonymous_variant LOW 363C>T Ala121Ala
M0136464 JNJMEFDC_00003 2664 3 Oral 0.60 protein_coding synonymous_variant LOW 480C>T Ile160Ile
M0136465 JNJMEFDC_00003 2736 3 Oral 0.60 protein_coding synonymous_variant LOW 552T>C Thr184Thr
M0136466 JNJMEFDC_00003 2773 3 Oral 0.60 protein_coding missense_variant MODERATE 589G>A Ala197Thr
M0136467 JNJMEFDC_00003 2910 3 Oral 0.60 protein_coding synonymous_variant LOW 726G>C Gly242Gly
M0136468 JNJMEFDC_00003 3096 3 Oral 0.60 protein_coding synonymous_variant LOW 912T>G Gly304Gly
M0136469 JNJMEFDC_00003 3219 3 Oral 0.60 protein_coding missense_variant MODERATE 1035A>G Ile345Met
M0136470 JNJMEFDC_00003 3259 3 Oral 0.60 protein_coding missense_variant MODERATE 1075A>G Thr359Ala
M0136471 JNJMEFDC_00003 3264 3 Oral 0.60 protein_coding synonymous_variant LOW 1080A>G Leu360Leu
M0136472 JNJMEFDC_00003 3363 3 Oral 0.60 protein_coding synonymous_variant LOW 1179A>G Ala393Ala
M0136473 JNJMEFDC_00003 3504 3 Oral 0.60 protein_coding synonymous_variant LOW 1320C>T Asn440Asn
M0136474 JNJMEFDC_00003 3591 3 Oral 0.60 protein_coding synonymous_variant LOW 1407G>A Pro469Pro
M0136475 JNJMEFDC_00003 3594 3 Oral 0.60 protein_coding synonymous_variant LOW 1410A>G Ala470Ala
M0136476 JNJMEFDC_00003 3648 3 Oral 0.60 protein_coding synonymous_variant LOW 1464A>C Gly488Gly
M0136477 JNJMEFDC_00004 3909 3 Oral 0.60 protein_coding missense_variant MODERATE 161T>C Val54Ala
M0136478 JNJMEFDC_00004 4135 3 Oral 0.60 protein_coding synonymous_variant LOW 387T>A Pro129Pro
M0136479 JNJMEFDC_00004 4170 3 Oral 0.60 protein_coding missense_variant MODERATE 422T>C Val141Ala
M0136480 JNJMEFDC_00004 4510 3 Oral 0.60 protein_coding synonymous_variant LOW 762T>C Asn254Asn
M0136481 JNJMEFDC_00004 4576 3 Oral 0.60 protein_coding synonymous_variant LOW 828G>A Glu276Glu
M0136482 JNJMEFDC_00004 4732 3 Oral 0.60 protein_coding synonymous_variant LOW 984C>T Tyr328Tyr
M0136483 JNJMEFDC_00004 4903 3 Oral 0.60 protein_coding synonymous_variant LOW 1155C>T Asp385Asp
M0136484 JNJMEFDC_00005 5140 3 Oral 0.60 protein_coding synonymous_variant LOW 54C>T Asn18Asn
M0136485 JNJMEFDC_00005 5152 3 Oral 0.60 protein_coding synonymous_variant LOW 66A>G Gln22Gln
M0136486 JNJMEFDC_00005 5160 3 Oral 0.60 protein_coding missense_variant MODERATE 74C>T Ser25Leu
M0136487 JNJMEFDC_00005 5257 3 Oral 0.60 protein_coding synonymous_variant LOW 171T>C Leu57Leu
M0136488 JNJMEFDC_00005 5272 3 Oral 0.60 protein_coding synonymous_variant LOW 186T>C Gly62Gly
M0136489 JNJMEFDC_00005 5342 3 Oral 0.60 protein_coding missense_variant MODERATE 256A>G Ile86Val
M0136490 JNJMEFDC_00005 5364 3 Oral 0.60 protein_coding missense_variant MODERATE 278G>A Ser93Asn






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