Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3037
  Reference Plasmid   DSKIN0049-1_bin.26__k141_20912
  Reference Plasmid Size   14857
  Reference Plasmid GC Content   0.69
  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
M0070020 BECGMGPN_00003 4518 4 Skin 0.57 protein_coding synonymous_variant LOW 1446G>A Pro482Pro
M0070021 BECGMGPN_00003 4519 4 Skin 0.57 protein_coding missense_variant MODERATE 1447T>G Ser483Ala
M0070022 BECGMGPN_00003 4521 4 Skin 0.57 protein_coding synonymous_variant LOW 1449C>G Ser483Ser
M0070023 BECGMGPN_00003 4524 4 Skin 0.57 protein_coding synonymous_variant LOW 1452C>T Ala484Ala
M0070024 BECGMGPN_00003 4533 4 Skin 0.57 protein_coding synonymous_variant LOW 1461C>T His487His
M0070025 BECGMGPN_00003 4665 3 Skin 0.43 protein_coding synonymous_variant LOW 1593G>T Leu531Leu
M0070026 BECGMGPN_00005 4697 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -1726G>C None
M0070027 BECGMGPN_00004 4730 3 Skin 0.43 protein_coding synonymous_variant LOW 1296A>C Arg432Arg
M0070028 BECGMGPN_00004 4744 3 Skin 0.43 protein_coding synonymous_variant LOW 1282T>C Leu428Leu
M0070029 BECGMGPN_00004 4748 3 Skin 0.43 protein_coding synonymous_variant LOW 1278C>T Ile426Ile
M0070030 BECGMGPN_00004 4766 3 Skin 0.43 protein_coding synonymous_variant LOW 1260C>T Gly420Gly
M0070031 BECGMGPN_00004 5306 4 Skin 0.57 protein_coding synonymous_variant LOW 720C>G Arg240Arg
M0070032 BECGMGPN_00004 5311 4 Skin 0.57 protein_coding synonymous_variant LOW 715C>T Leu239Leu
M0070033 BECGMGPN_00004 5312 4 Skin 0.57 protein_coding synonymous_variant LOW 714C>T Arg238Arg
M0070034 BECGMGPN_00004 5834 3 Skin 0.43 protein_coding synonymous_variant LOW 192G>C Ala64Ala
M0070035 BECGMGPN_00006 6721 6 Skin 0.86 protein_coding synonymous_variant LOW 27C>T Val9Val
M0070036 BECGMGPN_00006 7485 3 Skin 0.43 protein_coding missense_variant MODERATE 791A>G Asn264Ser
M0070037 BECGMGPN_00007 7545 3 Skin 0.43 protein_coding synonymous_variant LOW 42T>C Ala14Ala
M0070038 BECGMGPN_00008 7883 6 Skin 0.86 protein_coding missense_variant MODERATE 1679T>A Leu560Gln
M0070039 BECGMGPN_00008 8950 3 Skin 0.43 protein_coding synonymous_variant LOW 612C>T Ile204Ile
M0070040 BECGMGPN_00008 9013 3 Skin 0.43 protein_coding synonymous_variant LOW 549C>T Asp183Asp
M0070041 BECGMGPN_00008 9158 4 Skin 0.57 protein_coding missense_variant MODERATE 404C>T Ala135Val
M0070042 BECGMGPN_00008 9169 4 Skin 0.57 protein_coding synonymous_variant LOW 393G>C Gly131Gly
M0070043 BECGMGPN_00008 9175 4 Skin 0.57 protein_coding synonymous_variant LOW 387T>C Asp129Asp
M0070044 BECGMGPN_00008 9382 3 Skin 0.43 protein_coding synonymous_variant LOW 180T>C Arg60Arg
M0070045 BECGMGPN_00008 9403 3 Skin 0.43 protein_coding synonymous_variant LOW 159T>C Ala53Ala
M0070046 BECGMGPN_00008 9408 3 Skin 0.43 protein_coding missense_variant MODERATE 154A>C Met52Leu
M0070047 BECGMGPN_00008 9484 3 Skin 0.43 protein_coding missense_variant MODERATE 78C>G Asp26Glu
M0070048 BECGMGPN_00008 9490 3 Skin 0.43 protein_coding synonymous_variant LOW 72C>T His24His
M0070049 BECGMGPN_00004 9707 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -3682T>C None
M0070050 BECGMGPN_00004 9744 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -3719A>T None
M0070051 BECGMGPN_00004 9753 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -3728C>T None
M0070052 BECGMGPN_00004 9760 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -3735G>A None
M0070053 BECGMGPN_00004 9782 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -3757C>T None
M0070054 BECGMGPN_00004 9921 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -3896T>A None
M0070055 BECGMGPN_00009 10051 6 Skin 0.86 protein_coding synonymous_variant LOW 1407G>T Ser469Ser
M0070056 BECGMGPN_00009 10054 6 Skin 0.86 protein_coding synonymous_variant LOW 1404A>G Val468Val
M0070057 BECGMGPN_00009 10466 5 Skin 0.71 protein_coding missense_variant MODERATE 992G>C Gly331Ala
M0070058 BECGMGPN_00009 10476 5 Skin 0.71 protein_coding missense_variant MODERATE 982T>G Ser328Ala
M0070059 BECGMGPN_00009 10500 5 Skin 0.71 protein_coding missense_variant MODERATE 958T>G Ser320Ala
M0070060 BECGMGPN_00004 6286 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -261G>A None
M0070061 BECGMGPN_00004 6293 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -268T>C None
M0070062 BECGMGPN_00004 6308 4 Skin 0.57 protein_coding upstream_gene_variant MODIFIER -283T>A None
M0070063 BECGMGPN_00006 7054 5 Skin 0.71 protein_coding synonymous_variant LOW 360T>C Tyr120Tyr
M0070064 BECGMGPN_00008 9172 3 Skin 0.43 protein_coding synonymous_variant LOW 390C>T His130His
M0070065 BECGMGPN_00003 4449 3 Skin 0.43 protein_coding synonymous_variant LOW 1377G>A Glu459Glu
M0070066 BECGMGPN_00003 4592 3 Skin 0.43 protein_coding missense_variant MODERATE 1520C>A Ala507Glu
M0070067 BECGMGPN_00003 4596 3 Skin 0.43 protein_coding synonymous_variant LOW 1524G>A Pro508Pro
M0070068 BECGMGPN_00004 6358 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -333G>A None
M0070069 BECGMGPN_00004 6362 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -337T>C None
M0070070 BECGMGPN_00004 6375 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -350A>C None
M0070071 BECGMGPN_00005 6534 3 Skin 0.43 protein_coding synonymous_variant LOW 112T>C Leu38Leu
M0070072 BECGMGPN_00005 6680 3 Skin 0.43 protein_coding synonymous_variant LOW 258G>T Leu86Leu
M0070073 BECGMGPN_00008 8167 3 Skin 0.43 protein_coding synonymous_variant LOW 1395C>G Gly465Gly
M0070074 BECGMGPN_00008 8170 3 Skin 0.43 protein_coding synonymous_variant LOW 1392T>C Gly464Gly
M0070075 BECGMGPN_00008 8728 3 Skin 0.43 protein_coding synonymous_variant LOW 834C>G Ala278Ala
M0070076 BECGMGPN_00008 8739 3 Skin 0.43 protein_coding synonymous_variant LOW 823C>A Arg275Arg
M0070077 BECGMGPN_00008 8764 3 Skin 0.43 protein_coding synonymous_variant LOW 798G>C Arg266Arg
M0070078 BECGMGPN_00009 10961 4 Skin 0.57 protein_coding missense_variant MODERATE 497A>G Asn166Ser
M0070079 BECGMGPN_00009 11089 3 Skin 0.43 protein_coding synonymous_variant LOW 369C>T Ala123Ala
M0070080 BECGMGPN_00009 11106 3 Skin 0.43 protein_coding missense_variant MODERATE 352C>T Pro118Ser
M0070081 BECGMGPN_00009 11317 3 Skin 0.43 protein_coding synonymous_variant LOW 141G>A Val47Val
M0070082 BECGMGPN_00009 11431 3 Skin 0.43 protein_coding synonymous_variant LOW 27A>C Ala9Ala
M0070083 BECGMGPN_00010 11524 3 Skin 0.43 protein_coding synonymous_variant LOW 1275T>C Asn425Asn
M0070084 BECGMGPN_00008 13041 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -3480G>T None
M0070085 BECGMGPN_00008 9330 3 Skin 0.43 protein_coding missense_variant MODERATE 232A>C Asn78His
M0070086 BECGMGPN_00004 9838 3 Skin 0.43 protein_coding upstream_gene_variant MODIFIER -3813A>G None






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
BECGMGPN_00007 Benzylkonium Chloride (BAC) [class: Quaternary Ammonium Compounds (QACs)], Ethidium Bromide [class: Phenanthridine], Acriflavine [class: Acridine], Chlorhexidine [class: Biguanides], Pyronin Y [class: Xanthene], Rhodamine 6G [class: Xanthene], Methyl Viologen [class: Paraquat], Tetraphenylphosphonium (TPP) [class: Quaternary Ammonium Compounds (QACs)], 4,6-diamidino-2-phenylindole (DAPI) [class: Diamindine], Acridine Orange [class: Acridine], Sodium Dodecyl Sulfate (SDS) [class: Organo-sulfate], Sodium Deoxycholate (SDC) [class: Acid], Crystal Violet [class: Triarylmethane], Cetrimide (CTM) [class: Quaternary Ammonium Compounds (QACs)], Cetylpyridinium Chloride (CPC) [class: Quaternary Ammonium Compounds (QACs)], Dequalinium [class: Quaternary Ammonium Compounds (QACs)] 100 8.5e-56 1 111 1.0000 1.0000 prediction






        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