Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3098
  Reference Plasmid   MET0142_bin.3__k81_929
  Reference Plasmid Size   18089
  Reference Plasmid GC Content   0.29
  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
M0074956 BCGDHJPM_00010 10268 5 Skin 0.38 protein_coding synonymous_variant LOW 207A>T Ala69Ala
M0074957 BCGDHJPM_00010 10352 3 Skin 0.23 protein_coding synonymous_variant LOW 123A>G Lys41Lys
M0074958 BCGDHJPM_00010 10400 3 Skin 0.23 protein_coding synonymous_variant LOW 75A>T Val25Val
M0074959 BCGDHJPM_00010 10436 3 Skin 0.23 protein_coding synonymous_variant LOW 39G>A Glu13Glu
M0074960 BCGDHJPM_00006 10499 3 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -3103A>G None
M0074961 BCGDHJPM_00011 10981 7 Skin 0.54 protein_coding synonymous_variant LOW 36T>C Ile12Ile
M0074962 BCGDHJPM_00006 11127 6 Skin 0.46 protein_coding upstream_gene_variant MODIFIER -3731T>C None
M0074963 BCGDHJPM_00012 11236 12 Skin 0.92 protein_coding missense_variant MODERATE 646G>A Asp216Asn
M0074964 BCGDHJPM_00012 11411 5 Skin 0.38 protein_coding synonymous_variant LOW 471A>C Val157Val
M0074965 BCGDHJPM_00012 11456 6 Skin 0.46 protein_coding synonymous_variant LOW 426T>C Phe142Phe
M0074966 BCGDHJPM_00012 11480 5 Skin 0.38 protein_coding synonymous_variant LOW 402A>G Thr134Thr
M0074967 BCGDHJPM_00012 11525 5 Skin 0.38 protein_coding synonymous_variant LOW 357A>G Gln119Gln
M0074968 BCGDHJPM_00012 11597 4 Skin 0.31 protein_coding synonymous_variant LOW 285A>G Ala95Ala
M0074969 BCGDHJPM_00012 11660 4 Skin 0.31 protein_coding synonymous_variant LOW 222T>C Tyr74Tyr
M0074970 BCGDHJPM_00012 11690 5 Skin 0.38 protein_coding synonymous_variant LOW 192T>C Leu64Leu
M0074971 BCGDHJPM_00012 11757 5 Skin 0.38 protein_coding missense_variant MODERATE 125C>A Thr42Asn
M0074972 BCGDHJPM_00012 11801 5 Skin 0.38 protein_coding synonymous_variant LOW 81T>C Ile27Ile
M0074973 BCGDHJPM_00012 11837 5 Skin 0.38 protein_coding missense_variant MODERATE 45A>T Leu15Phe
M0074974 BCGDHJPM_00013 11882 5 Skin 0.38 protein_coding splice_region_variant&stop_retained_variant LOW 873A>G Ter291Ter
M0074975 BCGDHJPM_00013 12200 5 Skin 0.38 protein_coding synonymous_variant LOW 555A>G Leu185Leu
M0074976 BCGDHJPM_00013 12308 4 Skin 0.31 protein_coding synonymous_variant LOW 447C>T Gly149Gly
M0074977 BCGDHJPM_00013 12314 4 Skin 0.31 protein_coding synonymous_variant LOW 441C>G Thr147Thr
M0074978 BCGDHJPM_00013 12317 4 Skin 0.31 protein_coding synonymous_variant LOW 438G>T Pro146Pro
M0074979 BCGDHJPM_00013 12347 4 Skin 0.31 protein_coding synonymous_variant LOW 408T>C Asn136Asn
M0074980 BCGDHJPM_00013 12362 4 Skin 0.31 protein_coding synonymous_variant LOW 393T>C Ala131Ala
M0074981 BCGDHJPM_00013 12422 8 Skin 0.62 protein_coding synonymous_variant LOW 333C>T Pro111Pro
M0074982 BCGDHJPM_00013 12461 5 Skin 0.38 protein_coding synonymous_variant LOW 294A>C Ala98Ala
M0074983 BCGDHJPM_00013 12515 4 Skin 0.31 protein_coding synonymous_variant LOW 240A>G Gly80Gly
M0074984 BCGDHJPM_00013 12518 4 Skin 0.31 protein_coding synonymous_variant LOW 237A>G Thr79Thr
M0074985 BCGDHJPM_00013 12644 4 Skin 0.31 protein_coding synonymous_variant LOW 111G>A Val37Val
M0074986 BCGDHJPM_00013 12718 4 Skin 0.31 protein_coding missense_variant MODERATE 37A>C Asn13His
M0074987 BCGDHJPM_00014 12786 4 Skin 0.31 protein_coding missense_variant MODERATE 649G>A Val217Ile
M0074988 BCGDHJPM_00014 13063 3 Skin 0.23 protein_coding synonymous_variant LOW 372G>A Ser124Ser
M0074989 BCGDHJPM_00014 13218 4 Skin 0.31 protein_coding missense_variant MODERATE 217T>G Ser73Ala
M0074990 BCGDHJPM_00014 13324 4 Skin 0.31 protein_coding synonymous_variant LOW 111T>C Ser37Ser
M0074991 BCGDHJPM_00015 13436 3 Skin 0.23 protein_coding missense_variant MODERATE 895G>A Ala299Thr
M0074992 BCGDHJPM_00015 13456 4 Skin 0.31 protein_coding missense_variant MODERATE 875C>A Pro292Gln
M0074993 BCGDHJPM_00015 13550 3 Skin 0.23 protein_coding synonymous_variant LOW 781T>C Leu261Leu
M0074994 BCGDHJPM_00015 13562 3 Skin 0.23 protein_coding missense_variant MODERATE 769G>A Ala257Thr
M0074995 BCGDHJPM_00015 13584 3 Skin 0.23 protein_coding synonymous_variant LOW 747C>T Val249Val
M0074996 BCGDHJPM_00015 13596 3 Skin 0.23 protein_coding missense_variant MODERATE 735T>G His245Gln
M0074997 BCGDHJPM_00015 13676 3 Skin 0.23 protein_coding missense_variant MODERATE 655G>A Glu219Lys
M0074998 BCGDHJPM_00015 13896 3 Skin 0.23 protein_coding synonymous_variant LOW 435C>T His145His
M0074999 BCGDHJPM_00015 14079 4 Skin 0.31 protein_coding missense_variant MODERATE 252T>G Ile84Met
M0075000 BCGDHJPM_00009 14812 3 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -4892T>C None
M0075001 BCGDHJPM_00010 15320 4 Skin 0.31 protein_coding upstream_gene_variant MODIFIER -4846A>C None
M0075002 BCGDHJPM_00019 17264 3 Skin 0.23 protein_coding synonymous_variant LOW 285C>A Ala95Ala
M0075003 BCGDHJPM_00011 10682 4 Skin 0.31 protein_coding missense_variant MODERATE 335A>C Gln112Pro
M0075004 BCGDHJPM_00015 14124 5 Skin 0.38 protein_coding synonymous_variant LOW 207A>G Ser69Ser
M0075005 BCGDHJPM_00009 9821 5 Skin 0.38 protein_coding synonymous_variant LOW 100T>C Leu34Leu
M0075006 BCGDHJPM_00012 11245 7 Skin 0.54 protein_coding missense_variant MODERATE 637A>G Lys213Glu
M0075007 BCGDHJPM_00008 8908 4 Skin 0.31 protein_coding missense_variant MODERATE 937T>C Ser313Pro
M0075008 BCGDHJPM_00009 9261 4 Skin 0.31 protein_coding synonymous_variant LOW 660T>C Ser220Ser
M0075009 BCGDHJPM_00009 9445 4 Skin 0.31 protein_coding missense_variant MODERATE 476A>G His159Arg
M0075010 BCGDHJPM_00006 6950 3 Skin 0.23 protein_coding synonymous_variant LOW 447C>T Phe149Phe
M0075011 BCGDHJPM_00006 6958 3 Skin 0.23 protein_coding missense_variant MODERATE 439G>A Val147Ile
M0075012 BCGDHJPM_00002 7423 3 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -4368G>A None
M0075013 BCGDHJPM_00002 7429 3 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -4374A>G None
M0075014 BCGDHJPM_00008 8310 3 Skin 0.23 protein_coding synonymous_variant LOW 339T>C Asp113Asp
M0075015 BCGDHJPM_00008 8415 3 Skin 0.23 protein_coding synonymous_variant LOW 444C>T Gly148Gly
M0075016 BCGDHJPM_00008 8505 3 Skin 0.23 protein_coding synonymous_variant LOW 534A>T Leu178Leu
M0075017 BCGDHJPM_00008 8958 3 Skin 0.23 protein_coding synonymous_variant LOW 987C>T Asp329Asp






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
BCGDHJPM_00016 PHI:10290 yhcF 77.4 2.4e-49 1 124 0.9841 0.9841 primates skin infection; food poisoning; respiratory disease GntR family transcriptional regulator unaffected pathogenicity






        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
BCGDHJPM_00002 UVD89987.1|GH0 74.1 1.64e-196 1 359 1 0.9972





        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
BCGDHJPM_00001 2.A.47.1.11 82.1 1.5e-233 12 519 0.9788 0.9750 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.47 The Divalent Anion:Na+ Symporter (DASS) Family