Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3349
  Reference Plasmid   MGYG000298844__MGYG000298844_122
  Reference Plasmid Size   5925
  Reference Plasmid GC Content   0.36
  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
M0136415 CKLMIGJN_00002 1613 4 Oral 0.67 protein_coding synonymous_variant LOW 669G>A Val223Val
M0136416 CKLMIGJN_00002 1619 4 Oral 0.67 protein_coding synonymous_variant LOW 675T>A Val225Val
M0136417 CKLMIGJN_00002 1625 3 Oral 0.50 protein_coding synonymous_variant LOW 681G>T Val227Val
M0136418 CKLMIGJN_00002 1637 3 Oral 0.50 protein_coding synonymous_variant LOW 693T>G Ser231Ser
M0136419 CKLMIGJN_00002 1784 3 Oral 0.50 protein_coding synonymous_variant LOW 840A>G Gly280Gly
M0136420 CKLMIGJN_00002 1937 3 Oral 0.50 protein_coding synonymous_variant LOW 993T>A Ala331Ala
M0136421 CKLMIGJN_00002 1961 3 Oral 0.50 protein_coding synonymous_variant LOW 1017A>T Gly339Gly
M0136422 CKLMIGJN_00002 2087 3 Oral 0.50 protein_coding synonymous_variant LOW 1143C>T Ala381Ala
M0136423 CKLMIGJN_00002 2208 4 Oral 0.67 protein_coding synonymous_variant LOW 1264C>A Arg422Arg
M0136424 CKLMIGJN_00002 2255 4 Oral 0.67 protein_coding synonymous_variant LOW 1311T>C His437His
M0136425 CKLMIGJN_00002 2396 3 Oral 0.50 protein_coding synonymous_variant LOW 1452A>G Val484Val
M0136426 CKLMIGJN_00002 2407 3 Oral 0.50 protein_coding missense_variant MODERATE 1463A>G Asn488Ser
M0136427 CKLMIGJN_00003 2477 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -46C>T None
M0136428 CKLMIGJN_00003 2490 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -33C>T None
M0136429 CKLMIGJN_00003 2498 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -25C>T None
M0136430 CKLMIGJN_00003 2562 4 Oral 0.67 protein_coding missense_variant MODERATE 40A>C Ile14Leu
M0136431 CKLMIGJN_00003 2630 5 Oral 0.83 protein_coding synonymous_variant LOW 108A>T Gly36Gly
M0136432 CKLMIGJN_00003 2633 5 Oral 0.83 protein_coding synonymous_variant LOW 111A>G Gly37Gly
M0136433 CKLMIGJN_00003 3012 4 Oral 0.67 protein_coding missense_variant MODERATE 490G>A Val164Ile
M0136434 CKLMIGJN_00003 3059 3 Oral 0.50 protein_coding synonymous_variant LOW 537A>G Lys179Lys
M0136435 CKLMIGJN_00003 3065 3 Oral 0.50 protein_coding synonymous_variant LOW 543A>G Ala181Ala
M0136436 CKLMIGJN_00001 617 3 Oral 0.50 protein_coding synonymous_variant LOW 585A>T Ala195Ala
M0136437 CKLMIGJN_00003 2555 3 Oral 0.50 protein_coding synonymous_variant LOW 33G>A Arg11Arg
M0136438 CKLMIGJN_00003 3713 3 Oral 0.50 protein_coding synonymous_variant LOW 1191A>G Lys397Lys
M0136439 CKLMIGJN_00003 3719 3 Oral 0.50 protein_coding synonymous_variant LOW 1197A>G Gly399Gly
M0136440 CKLMIGJN_00003 3764 3 Oral 0.50 protein_coding missense_variant MODERATE 1242C>A Asp414Glu
M0136441 CKLMIGJN_00003 3776 3 Oral 0.50 protein_coding synonymous_variant LOW 1254A>G Ser418Ser
M0136442 CKLMIGJN_00003 3800 3 Oral 0.50 protein_coding synonymous_variant LOW 1278C>T Asn426Asn
M0136443 CKLMIGJN_00003 3806 3 Oral 0.50 protein_coding synonymous_variant LOW 1284G>A Leu428Leu
M0136444 CKLMIGJN_00003 4316 3 Oral 0.50 protein_coding synonymous_variant LOW 1794A>G Gln598Gln
M0136445 CKLMIGJN_00003 4319 3 Oral 0.50 protein_coding synonymous_variant LOW 1797T>C Pro599Pro
M0136446 CKLMIGJN_00003 4349 3 Oral 0.50 protein_coding synonymous_variant LOW 1827G>A Val609Val
M0136447 CKLMIGJN_00003 4404 3 Oral 0.50 protein_coding missense_variant MODERATE 1882G>C Val628Leu
M0136448 CKLMIGJN_00003 4406 3 Oral 0.50 protein_coding synonymous_variant LOW 1884A>G Val628Val
M0136449 CKLMIGJN_00003 4412 3 Oral 0.50 protein_coding synonymous_variant LOW 1890A>T Ala630Ala
M0136450 CKLMIGJN_00003 4433 3 Oral 0.50 protein_coding synonymous_variant LOW 1911A>C Thr637Thr






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