Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1197
  Reference Plasmid   NZ_CP132008.1
  Reference Plasmid Size   106245
  Reference Plasmid GC Content   0.56
  Reference Plasmid Mobility Type   conjugative





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
M0112887 CNPCIMOH_00094 85671 3 Skin 0.06 protein_coding synonymous_variant LOW 237C>T Ile79Ile
M0112888 CNPCIMOH_00094 85683 3 Skin 0.06 protein_coding synonymous_variant LOW 225G>A Ser75Ser
M0112889 CNPCIMOH_00094 85692 3 Skin 0.06 protein_coding synonymous_variant LOW 216C>T Arg72Arg
M0112890 CNPCIMOH_00094 85703 3 Skin 0.06 protein_coding missense_variant MODERATE 205G>C Glu69Gln
M0112891 CNPCIMOH_00094 85710 3 Skin 0.06 protein_coding synonymous_variant LOW 198C>T Ile66Ile
M0112892 CNPCIMOH_00094 85752 3 Skin 0.06 protein_coding synonymous_variant LOW 156C>T Thr52Thr
M0112893 CNPCIMOH_00094 85755 3 Skin 0.06 protein_coding synonymous_variant LOW 153T>C Arg51Arg
M0112894 CNPCIMOH_00094 85761 3 Skin 0.06 protein_coding synonymous_variant LOW 147C>A Val49Val
M0112895 CNPCIMOH_00094 85803 3 Skin 0.06 protein_coding synonymous_variant LOW 105C>T Ala35Ala
M0112896 CNPCIMOH_00094 85812 3 Skin 0.06 protein_coding synonymous_variant LOW 96G>C Leu32Leu
M0112897 CNPCIMOH_00094 85821 3 Skin 0.06 protein_coding synonymous_variant LOW 87G>C Val29Val
M0112898 CNPCIMOH_00094 85833 3 Skin 0.06 protein_coding synonymous_variant LOW 75C>T Asn25Asn
M0112899 CNPCIMOH_00094 85836 3 Skin 0.06 protein_coding synonymous_variant LOW 72C>T Pro24Pro
M0112900 CNPCIMOH_00094 85881 3 Skin 0.06 protein_coding synonymous_variant LOW 27A>T Ile9Ile
M0112901 CNPCIMOH_00095 88084 3 Skin 0.06 protein_coding synonymous_variant LOW 375G>C Leu125Leu
M0112902 CNPCIMOH_00093 88887 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -3595G>C None
M0112903 CNPCIMOH_00014 12557 4 Skin 0.08 protein_coding synonymous_variant LOW 1488C>T Asp496Asp
M0112904 CNPCIMOH_00050 43387 4 Skin 0.08 protein_coding synonymous_variant LOW 924G>A Ser308Ser
M0112905 CNPCIMOH_00050 43736 3 Skin 0.06 protein_coding missense_variant MODERATE 575T>C Val192Ala
M0112906 CNPCIMOH_00097 89721 3 Skin 0.06 protein_coding synonymous_variant LOW 357T>C Tyr119Tyr
M0112907 CNPCIMOH_00097 90000 3 Skin 0.06 protein_coding synonymous_variant LOW 78A>G Leu26Leu
M0112908 CNPCIMOH_00097 90008 3 Skin 0.06 protein_coding missense_variant MODERATE 70A>G Thr24Ala
M0112909 CNPCIMOH_00093 90195 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -4903A>C None
M0112910 CNPCIMOH_00099 90527 3 Skin 0.06 protein_coding stop_gained HIGH 979C>T Gln327*
M0112911 CNPCIMOH_00099 90683 3 Skin 0.06 protein_coding missense_variant MODERATE 823A>G Thr275Ala






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
CNPCIMOH_00114 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 1.1e-60 1 115 1.0000 1.0000 experiment






        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
CNPCIMOH_00005 ARO:3000174 94.6 2.91e-260 1 391 1.0000 1.0000 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
CNPCIMOH_00006 ARO:3002601 100 9.82e-190 1 263 1.0000 1.0000 aminoglycoside antibiotic ANT(3'') antibiotic inactivation
CNPCIMOH_00007 ARO:3002594 100 2.6e-139 1 184 1.0000 1.0000 aminoglycoside antibiotic AAC(6') antibiotic inactivation
CNPCIMOH_00010 ARO:3002799 100 1.34e-79 1 218 1.0000 1.0000 fluoroquinolone antibiotic quinolone resistance protein (qnr) antibiotic target protection
CNPCIMOH_00113 ARO:3000410 100 2.94e-199 1 279 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
CNPCIMOH_00114 ARO:3005010 100 2.01e-78 1 115 1.0000 1.0000 disinfecting agents and antiseptics major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
CNPCIMOH_00115 ARO:3000361 98.8 1.72e-287 1 406 1.0000 1.0000 macrolide antibiotic macrolide esterase antibiotic inactivation
CNPCIMOH_00116 ARO:3007370 86.4 5.55e-74 1 118 1.0000 0.8806 phosphonic acid antibiotic fosfomycin thiol transferase antibiotic inactivation






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
CNPCIMOH_00011 PHI:9804 int 100 4e-14 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence






        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
CNPCIMOH_00109 2.A.53.3.1 74.3 1.2e-203 1 494 0.9980 0.9939 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.53 The Sulfate Permease (SulP) Family