Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3302
  Reference Plasmid   MGYG000298145__MGYG000298145_543
  Reference Plasmid Size   6381
  Reference Plasmid GC Content   0.48
  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
M0134372 IKHOJCBD_00001 113 4 Oral 0.80 protein_coding upstream_gene_variant MODIFIER -25C>T None
M0134373 IKHOJCBD_00001 323 3 Oral 0.60 protein_coding missense_variant MODERATE 186G>T Met62Ile
M0134374 IKHOJCBD_00001 485 5 Oral 1.00 protein_coding synonymous_variant LOW 348C>A Gly116Gly
M0134375 IKHOJCBD_00001 554 3 Oral 0.60 protein_coding synonymous_variant LOW 417C>T Pro139Pro
M0134376 IKHOJCBD_00001 710 5 Oral 1.00 protein_coding synonymous_variant LOW 573T>C Ile191Ile
M0134377 IKHOJCBD_00001 1151 3 Oral 0.60 protein_coding synonymous_variant LOW 1014T>C Asn338Asn
M0134378 IKHOJCBD_00002 1417 3 Oral 0.60 protein_coding synonymous_variant LOW 189C>A Pro63Pro
M0134379 IKHOJCBD_00002 1420 3 Oral 0.60 protein_coding synonymous_variant LOW 192G>A Gly64Gly
M0134380 IKHOJCBD_00002 2089 3 Oral 0.60 protein_coding synonymous_variant LOW 861T>C Thr287Thr
M0134381 IKHOJCBD_00002 2266 4 Oral 0.80 protein_coding synonymous_variant LOW 1038A>G Arg346Arg
M0134382 IKHOJCBD_00002 2689 3 Oral 0.60 protein_coding synonymous_variant LOW 1461T>C Ser487Ser
M0134383 IKHOJCBD_00002 2791 3 Oral 0.60 protein_coding synonymous_variant LOW 1563G>A Gln521Gln
M0134384 IKHOJCBD_00002 2993 3 Oral 0.60 protein_coding synonymous_variant LOW 1765C>T Leu589Leu
M0134385 IKHOJCBD_00002 2995 3 Oral 0.60 protein_coding synonymous_variant LOW 1767A>G Leu589Leu
M0134386 IKHOJCBD_00002 3082 3 Oral 0.60 protein_coding synonymous_variant LOW 1854A>G Lys618Lys
M0134387 IKHOJCBD_00002 3097 3 Oral 0.60 protein_coding synonymous_variant LOW 1869C>T Ser623Ser
M0134388 IKHOJCBD_00002 3103 3 Oral 0.60 protein_coding synonymous_variant LOW 1875T>C Ala625Ala
M0134389 IKHOJCBD_00002 3226 3 Oral 0.60 protein_coding synonymous_variant LOW 1998C>T Ile666Ile
M0134390 IKHOJCBD_00002 3310 3 Oral 0.60 protein_coding synonymous_variant LOW 2082C>T Asp694Asp
M0134391 IKHOJCBD_00002 3316 3 Oral 0.60 protein_coding synonymous_variant LOW 2088A>C Val696Val
M0134392 IKHOJCBD_00002 3559 4 Oral 0.80 protein_coding synonymous_variant LOW 2331A>C Gly777Gly
M0134393 IKHOJCBD_00002 3700 3 Oral 0.60 protein_coding synonymous_variant LOW 2472G>A Gly824Gly
M0134394 IKHOJCBD_00002 3739 3 Oral 0.60 protein_coding synonymous_variant LOW 2511A>G Glu837Glu
M0134395 IKHOJCBD_00002 3772 3 Oral 0.60 protein_coding synonymous_variant LOW 2544C>T Asn848Asn
M0134396 IKHOJCBD_00002 3838 3 Oral 0.60 protein_coding synonymous_variant LOW 2610G>A Glu870Glu
M0134397 IKHOJCBD_00002 3895 3 Oral 0.60 protein_coding synonymous_variant LOW 2667G>A Ser889Ser
M0134398 IKHOJCBD_00002 4228 3 Oral 0.60 protein_coding synonymous_variant LOW 3000T>C Arg1000Arg
M0134399 IKHOJCBD_00002 4294 3 Oral 0.60 protein_coding synonymous_variant LOW 3066C>T Tyr1022Tyr
M0134400 IKHOJCBD_00003 4539 3 Oral 0.60 protein_coding synonymous_variant LOW 135C>T Phe45Phe
M0134401 IKHOJCBD_00003 4614 3 Oral 0.60 protein_coding synonymous_variant LOW 210A>G Thr70Thr
M0134402 IKHOJCBD_00003 4685 3 Oral 0.60 protein_coding missense_variant MODERATE 281A>G His94Arg
M0134403 IKHOJCBD_00001 61 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -77C>T None
M0134404 IKHOJCBD_00001 366 3 Oral 0.60 protein_coding missense_variant MODERATE 229T>G Ser77Ala
M0134405 IKHOJCBD_00001 665 3 Oral 0.60 protein_coding synonymous_variant LOW 528A>G Glu176Glu
M0134406 IKHOJCBD_00002 1558 3 Oral 0.60 protein_coding synonymous_variant LOW 330T>C Asp110Asp
M0134407 IKHOJCBD_00001 385 3 Oral 0.60 protein_coding missense_variant MODERATE 248A>T Tyr83Phe






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