Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3300
  Reference Plasmid   MGYG000298130__MGYG000298130_17
  Reference Plasmid Size   5090
  Reference Plasmid GC Content   0.58
  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
M0134293 GJNDCBGD_00001 50 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -19T>C None
M0134294 GJNDCBGD_00001 819 4 Oral 0.80 protein_coding missense_variant MODERATE 751A>G Lys251Glu
M0134295 GJNDCBGD_00001 851 3 Oral 0.60 protein_coding synonymous_variant LOW 783T>C Ser261Ser
M0134296 GJNDCBGD_00001 1256 3 Oral 0.60 protein_coding synonymous_variant LOW 1188T>C Ile396Ile
M0134297 GJNDCBGD_00001 1323 3 Oral 0.60 protein_coding synonymous_variant LOW 1255T>C Leu419Leu
M0134298 GJNDCBGD_00001 1340 3 Oral 0.60 protein_coding synonymous_variant LOW 1272T>C Leu424Leu
M0134299 GJNDCBGD_00001 1432 3 Oral 0.60 protein_coding missense_variant MODERATE 1364A>G His455Arg
M0134300 GJNDCBGD_00002 1619 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -5G>C None
M0134301 GJNDCBGD_00002 1651 3 Oral 0.60 protein_coding missense_variant MODERATE 28C>T Arg10Trp
M0134302 GJNDCBGD_00002 1716 4 Oral 0.80 protein_coding synonymous_variant LOW 93T>G Gly31Gly
M0134303 GJNDCBGD_00002 1857 4 Oral 0.80 protein_coding synonymous_variant LOW 234T>C Leu78Leu
M0134304 GJNDCBGD_00002 1998 3 Oral 0.60 protein_coding synonymous_variant LOW 375C>T Val125Val
M0134305 GJNDCBGD_00002 2044 4 Oral 0.80 protein_coding synonymous_variant LOW 421C>T Leu141Leu
M0134306 GJNDCBGD_00003 2132 3 Oral 0.60 protein_coding synonymous_variant LOW 54C>T Arg18Arg
M0134307 GJNDCBGD_00003 2351 3 Oral 0.60 protein_coding synonymous_variant LOW 273C>T Phe91Phe
M0134308 GJNDCBGD_00003 2354 3 Oral 0.60 protein_coding synonymous_variant LOW 276A>G Ser92Ser
M0134309 GJNDCBGD_00004 2533 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -224C>G None
M0134310 GJNDCBGD_00004 2564 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -193G>T None
M0134311 GJNDCBGD_00004 2750 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -7G>A None
M0134312 GJNDCBGD_00004 2795 4 Oral 0.80 protein_coding synonymous_variant LOW 39T>C Phe13Phe
M0134313 GJNDCBGD_00004 2809 3 Oral 0.60 protein_coding missense_variant MODERATE 53T>C Val18Ala
M0134314 GJNDCBGD_00004 2816 3 Oral 0.60 protein_coding synonymous_variant LOW 60G>T Leu20Leu
M0134315 GJNDCBGD_00004 2819 3 Oral 0.60 protein_coding synonymous_variant LOW 63C>T Thr21Thr
M0134316 GJNDCBGD_00004 2862 3 Oral 0.60 protein_coding missense_variant MODERATE 106G>A Ala36Thr
M0134317 GJNDCBGD_00004 3131 3 Oral 0.60 protein_coding synonymous_variant LOW 375T>C Gly125Gly
M0134318 GJNDCBGD_00004 3236 3 Oral 0.60 protein_coding synonymous_variant LOW 480C>T Gly160Gly
M0134319 GJNDCBGD_00005 3724 3 Oral 0.60 protein_coding synonymous_variant LOW 294G>T Thr98Thr
M0134320 GJNDCBGD_00005 3730 3 Oral 0.60 protein_coding synonymous_variant LOW 300C>T Gly100Gly
M0134321 GJNDCBGD_00005 3733 3 Oral 0.60 protein_coding synonymous_variant LOW 303C>T Pro101Pro
M0134322 GJNDCBGD_00005 3763 3 Oral 0.60 protein_coding synonymous_variant LOW 333C>T Gly111Gly
M0134323 GJNDCBGD_00005 3784 3 Oral 0.60 protein_coding synonymous_variant LOW 354T>C Ala118Ala
M0134324 GJNDCBGD_00005 3931 3 Oral 0.60 protein_coding synonymous_variant LOW 501A>G Val167Val
M0134325 GJNDCBGD_00005 3934 3 Oral 0.60 protein_coding synonymous_variant LOW 504C>T Asn168Asn
M0134326 GJNDCBGD_00005 3973 3 Oral 0.60 protein_coding synonymous_variant LOW 543C>T Asp181Asp
M0134327 GJNDCBGD_00006 4221 3 Oral 0.60 protein_coding missense_variant MODERATE 184T>C Ser62Pro
M0134328 GJNDCBGD_00006 4229 3 Oral 0.60 protein_coding synonymous_variant LOW 192T>C Gly64Gly
M0134329 GJNDCBGD_00006 4265 3 Oral 0.60 protein_coding synonymous_variant LOW 228G>C Ala76Ala
M0134330 GJNDCBGD_00006 4403 3 Oral 0.60 protein_coding synonymous_variant LOW 366T>C Arg122Arg
M0134331 GJNDCBGD_00006 4418 3 Oral 0.60 protein_coding synonymous_variant LOW 381C>T Tyr127Tyr
M0134332 GJNDCBGD_00006 4421 3 Oral 0.60 protein_coding synonymous_variant LOW 384C>T Pro128Pro
M0134333 GJNDCBGD_00002 1732 3 Oral 0.60 protein_coding missense_variant MODERATE 109T>C Tyr37His
M0134334 GJNDCBGD_00007 4885 3 Oral 0.60 protein_coding synonymous_variant LOW 141C>T Val47Val
M0134335 GJNDCBGD_00007 4894 3 Oral 0.60 protein_coding synonymous_variant LOW 132T>C Ser44Ser
M0134336 GJNDCBGD_00007 4903 3 Oral 0.60 protein_coding synonymous_variant LOW 123C>T Arg41Arg






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
GJNDCBGD_00002 1.A.43.1.8 99.3 8.7e-78 1 151 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.43 The Camphor Resistance or Fluoride Exporter (Fluc) Family