Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2462
  Reference Plasmid   1111525849768046_bin.37__k141_66013
  Reference Plasmid Size   6624
  Reference Plasmid GC Content   0.35
  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
M0128040 POKCBIOC_00002 2867 3 Oral 0.50 protein_coding missense_variant MODERATE 632C>G Thr211Arg
M0128041 POKCBIOC_00002 2881 3 Oral 0.50 protein_coding synonymous_variant LOW 618T>C His206His
M0128042 POKCBIOC_00002 2884 3 Oral 0.50 protein_coding missense_variant MODERATE 615G>A Met205Ile
M0128043 POKCBIOC_00002 3430 4 Oral 0.67 protein_coding missense_variant MODERATE 69C>A His23Gln
M0128044 POKCBIOC_00002 3466 4 Oral 0.67 protein_coding synonymous_variant LOW 33C>T Ser11Ser
M0128045 POKCBIOC_00002 3485 4 Oral 0.67 protein_coding missense_variant MODERATE 14A>T Asn5Ile
M0128046 POKCBIOC_00001 3617 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1359G>A None
M0128047 POKCBIOC_00001 3715 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1457T>C None
M0128048 POKCBIOC_00003 4109 4 Oral 0.67 protein_coding synonymous_variant LOW 951A>T Val317Val
M0128049 POKCBIOC_00003 4136 4 Oral 0.67 protein_coding synonymous_variant LOW 924T>A Ala308Ala
M0128050 POKCBIOC_00003 4160 4 Oral 0.67 protein_coding synonymous_variant LOW 900A>T Thr300Thr
M0128051 POKCBIOC_00003 4232 4 Oral 0.67 protein_coding synonymous_variant LOW 828C>T Val276Val
M0128052 POKCBIOC_00003 4580 3 Oral 0.50 protein_coding synonymous_variant LOW 480T>A Ser160Ser
M0128053 POKCBIOC_00003 4736 3 Oral 0.50 protein_coding synonymous_variant LOW 324C>T Gly108Gly
M0128054 POKCBIOC_00003 4739 3 Oral 0.50 protein_coding synonymous_variant LOW 321T>C Ser107Ser
M0128055 POKCBIOC_00004 5441 3 Oral 0.50 protein_coding synonymous_variant LOW 1092T>C Asp364Asp
M0128056 POKCBIOC_00004 5558 3 Oral 0.50 protein_coding synonymous_variant LOW 975A>T Val325Val
M0128057 POKCBIOC_00004 5592 3 Oral 0.50 protein_coding missense_variant MODERATE 941A>G His314Arg
M0128058 POKCBIOC_00004 5621 3 Oral 0.50 protein_coding synonymous_variant LOW 912T>C His304His
M0128059 POKCBIOC_00004 5636 3 Oral 0.50 protein_coding synonymous_variant LOW 897G>A Lys299Lys
M0128060 POKCBIOC_00004 5659 3 Oral 0.50 protein_coding missense_variant MODERATE 874A>C Lys292Gln
M0128061 POKCBIOC_00004 5678 3 Oral 0.50 protein_coding synonymous_variant LOW 855A>T Ala285Ala
M0128062 POKCBIOC_00004 5696 4 Oral 0.67 protein_coding synonymous_variant LOW 837T>C Ile279Ile
M0128063 POKCBIOC_00004 5732 3 Oral 0.50 protein_coding synonymous_variant LOW 801T>A Pro267Pro
M0128064 POKCBIOC_00004 5762 4 Oral 0.67 protein_coding synonymous_variant LOW 771T>C Asn257Asn
M0128065 POKCBIOC_00004 5765 3 Oral 0.50 protein_coding synonymous_variant LOW 768T>C Asn256Asn
M0128066 POKCBIOC_00004 5777 4 Oral 0.67 protein_coding synonymous_variant LOW 756A>C Gly252Gly
M0128067 POKCBIOC_00004 5876 3 Oral 0.50 protein_coding synonymous_variant LOW 657C>T Ser219Ser
M0128068 POKCBIOC_00004 5930 3 Oral 0.50 protein_coding synonymous_variant LOW 603A>G Lys201Lys
M0128069 POKCBIOC_00004 5942 3 Oral 0.50 protein_coding synonymous_variant LOW 591C>T Gly197Gly
M0128070 POKCBIOC_00004 5957 3 Oral 0.50 protein_coding synonymous_variant LOW 576A>G Gln192Gln
M0128071 POKCBIOC_00004 5959 3 Oral 0.50 protein_coding missense_variant MODERATE 574C>A Gln192Lys
M0128072 POKCBIOC_00004 5963 3 Oral 0.50 protein_coding synonymous_variant LOW 570A>T Ala190Ala
M0128073 POKCBIOC_00004 6008 3 Oral 0.50 protein_coding synonymous_variant LOW 525G>A Glu175Glu
M0128074 POKCBIOC_00004 6023 3 Oral 0.50 protein_coding synonymous_variant LOW 510A>G Gln170Gln
M0128075 POKCBIOC_00004 6098 3 Oral 0.50 protein_coding synonymous_variant LOW 435C>T His145His
M0128076 POKCBIOC_00004 6221 3 Oral 0.50 protein_coding synonymous_variant LOW 312C>G Thr104Thr
M0128077 POKCBIOC_00004 6243 3 Oral 0.50 protein_coding missense_variant MODERATE 290C>T Ser97Leu
M0128078 POKCBIOC_00004 6308 3 Oral 0.50 protein_coding synonymous_variant LOW 225C>T Gly75Gly
M0128079 POKCBIOC_00004 6323 4 Oral 0.67 protein_coding synonymous_variant LOW 210T>A Thr70Thr
M0128080 POKCBIOC_00004 6335 3 Oral 0.50 protein_coding synonymous_variant LOW 198T>A Ile66Ile
M0128081 POKCBIOC_00003 4031 3 Oral 0.50 protein_coding synonymous_variant LOW 1029T>C Ile343Ile
M0128082 POKCBIOC_00003 4409 4 Oral 0.67 protein_coding synonymous_variant LOW 651T>C His217His
M0128083 POKCBIOC_00003 4460 4 Oral 0.67 protein_coding synonymous_variant LOW 600T>C Ser200Ser
M0128084 POKCBIOC_00003 4847 3 Oral 0.50 protein_coding synonymous_variant LOW 213A>T Gly71Gly
M0128085 POKCBIOC_00003 4862 3 Oral 0.50 protein_coding synonymous_variant LOW 198T>C Ile66Ile
M0128086 POKCBIOC_00003 4403 3 Oral 0.50 protein_coding synonymous_variant LOW 657T>C Phe219Phe
M0128087 POKCBIOC_00003 4412 3 Oral 0.50 protein_coding synonymous_variant LOW 648T>C His216His






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