Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1024
  Reference Plasmid   NZ_CP096928.1
  Reference Plasmid Size   416743
  Reference Plasmid GC Content   0.56
  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
M0106762 IMMKFBCP_00391 336551 7 Skin 0.18 protein_coding synonymous_variant LOW 804T>G Pro268Pro
M0106763 IMMKFBCP_00391 336818 4 Skin 0.10 protein_coding synonymous_variant LOW 537T>C Arg179Arg
M0106764 IMMKFBCP_00391 336847 5 Skin 0.13 protein_coding missense_variant MODERATE 508G>C Ala170Pro
M0106765 IMMKFBCP_00391 336869 4 Skin 0.10 protein_coding synonymous_variant LOW 486G>A Val162Val
M0106766 IMMKFBCP_00392 337371 5 Skin 0.13 protein_coding missense_variant MODERATE 988A>C Lys330Gln
M0106767 IMMKFBCP_00392 337415 15 Skin 0.38 protein_coding missense_variant MODERATE 944T>C Val315Ala
M0106768 IMMKFBCP_00392 337873 7 Skin 0.18 protein_coding missense_variant MODERATE 486T>G Asp162Glu
M0106769 IMMKFBCP_00392 337886 7 Skin 0.18 protein_coding missense_variant MODERATE 473T>A Leu158Gln
M0106770 IMMKFBCP_00392 337921 7 Skin 0.18 protein_coding synonymous_variant LOW 438T>G Ala146Ala
M0106771 IMMKFBCP_00392 337971 11 Skin 0.28 protein_coding missense_variant MODERATE 388G>A Glu130Lys
M0106772 IMMKFBCP_00392 338149 5 Skin 0.13 protein_coding synonymous_variant LOW 210A>G Val70Val
M0106773 IMMKFBCP_00392 338161 5 Skin 0.13 protein_coding synonymous_variant LOW 198T>C Pro66Pro
M0106774 IMMKFBCP_00392 338173 5 Skin 0.13 protein_coding synonymous_variant LOW 186T>C Leu62Leu
M0106775 IMMKFBCP_00392 338179 5 Skin 0.13 protein_coding missense_variant MODERATE 180C>A Asp60Glu
M0106776 IMMKFBCP_00392 338256 11 Skin 0.28 protein_coding missense_variant MODERATE 103A>C Thr35Pro
M0106777 IMMKFBCP_00393 338583 11 Skin 0.28 protein_coding synonymous_variant LOW 612G>T Thr204Thr
M0106778 IMMKFBCP_00393 338711 4 Skin 0.10 protein_coding missense_variant MODERATE 484G>A Val162Ile
M0106779 IMMKFBCP_00393 338913 4 Skin 0.10 protein_coding synonymous_variant LOW 282T>C Gly94Gly
M0106780 IMMKFBCP_00393 338933 4 Skin 0.10 protein_coding synonymous_variant LOW 262T>C Leu88Leu
M0106781 IMMKFBCP_00393 338934 4 Skin 0.10 protein_coding synonymous_variant LOW 261C>G Thr87Thr
M0106782 IMMKFBCP_00393 338946 4 Skin 0.10 protein_coding synonymous_variant LOW 249C>G Pro83Pro
M0106783 IMMKFBCP_00393 339045 5 Skin 0.13 protein_coding synonymous_variant LOW 150C>G Leu50Leu
M0106784 IMMKFBCP_00393 339086 6 Skin 0.15 protein_coding missense_variant MODERATE 109T>C Phe37Leu
M0106785 IMMKFBCP_00393 339093 6 Skin 0.15 protein_coding synonymous_variant LOW 102G>A Ala34Ala
M0106786 IMMKFBCP_00394 339248 10 Skin 0.26 protein_coding synonymous_variant LOW 819C>T Ile273Ile
M0106787 IMMKFBCP_00394 339293 9 Skin 0.23 protein_coding synonymous_variant LOW 774G>A Lys258Lys
M0106788 IMMKFBCP_00394 339395 6 Skin 0.15 protein_coding synonymous_variant LOW 672G>A Gln224Gln
M0106789 IMMKFBCP_00394 339401 6 Skin 0.15 protein_coding synonymous_variant LOW 666C>T Tyr222Tyr
M0106790 IMMKFBCP_00394 339459 6 Skin 0.15 protein_coding missense_variant MODERATE 608C>T Ala203Val
M0106791 IMMKFBCP_00394 339462 6 Skin 0.15 protein_coding missense_variant MODERATE 605T>C Val202Ala
M0106792 IMMKFBCP_00394 339580 11 Skin 0.28 protein_coding synonymous_variant LOW 487T>C Leu163Leu
M0106793 IMMKFBCP_00394 339581 11 Skin 0.28 protein_coding missense_variant MODERATE 486T>G Asp162Glu
M0106794 IMMKFBCP_00394 339616 11 Skin 0.28 protein_coding synonymous_variant LOW 451T>C Leu151Leu
M0106795 IMMKFBCP_00395 340831 3 Skin 0.08 protein_coding synonymous_variant LOW 60T>C Tyr20Tyr
M0106796 IMMKFBCP_00390 340963 10 Skin 0.26 protein_coding upstream_gene_variant MODIFIER -4586T>G None
M0106797 IMMKFBCP_00391 341928 9 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -4574G>A None
M0106798 IMMKFBCP_00398 342638 9 Skin 0.23 protein_coding synonymous_variant LOW 255G>T Thr85Thr
M0106799 IMMKFBCP_00393 343530 3 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -4336A>G None
M0106800 IMMKFBCP_00396 341819 4 Skin 0.10 protein_coding synonymous_variant LOW 468T>C Gly156Gly
M0106801 IMMKFBCP_00396 341840 4 Skin 0.10 protein_coding synonymous_variant LOW 489T>C His163His
M0106802 IMMKFBCP_00396 341855 4 Skin 0.10 protein_coding synonymous_variant LOW 504T>A Gly168Gly
M0106803 IMMKFBCP_00396 341864 4 Skin 0.10 protein_coding synonymous_variant LOW 513C>T Tyr171Tyr
M0106804 IMMKFBCP_00398 342930 7 Skin 0.18 protein_coding missense_variant MODERATE 547C>G His183Asp
M0106805 IMMKFBCP_00398 342935 7 Skin 0.18 protein_coding synonymous_variant LOW 552T>C Gly184Gly
M0106806 IMMKFBCP_00398 342946 7 Skin 0.18 protein_coding missense_variant MODERATE 563G>C Arg188Pro
M0106807 IMMKFBCP_00398 343169 6 Skin 0.15 protein_coding synonymous_variant LOW 786C>G Pro262Pro
M0106808 IMMKFBCP_00398 343202 6 Skin 0.15 protein_coding synonymous_variant LOW 819T>C Ser273Ser
M0106809 IMMKFBCP_00398 343433 5 Skin 0.13 protein_coding synonymous_variant LOW 1050C>G Val350Val
M0106810 IMMKFBCP_00391 336677 4 Skin 0.10 protein_coding synonymous_variant LOW 678G>C Val226Val
M0106811 IMMKFBCP_00392 337787 4 Skin 0.10 protein_coding missense_variant MODERATE 572A>G Gln191Arg
M0106812 IMMKFBCP_00393 338580 3 Skin 0.08 protein_coding synonymous_variant LOW 615G>A Pro205Pro
M0106813 IMMKFBCP_00391 336840 4 Skin 0.10 protein_coding missense_variant MODERATE 515C>T Ala172Val
M0106814 IMMKFBCP_00392 337414 3 Skin 0.08 protein_coding synonymous_variant LOW 945A>G Val315Val
M0106815 IMMKFBCP_00392 337427 3 Skin 0.08 protein_coding missense_variant MODERATE 932A>G Asn311Ser
M0106816 IMMKFBCP_00392 337999 8 Skin 0.21 protein_coding synonymous_variant LOW 360G>C Arg120Arg
M0106817 IMMKFBCP_00394 339582 5 Skin 0.13 protein_coding missense_variant MODERATE 485A>G Asp162Gly
M0106818 IMMKFBCP_00394 339604 5 Skin 0.13 protein_coding missense_variant MODERATE 463A>G Thr155Ala
M0106819 IMMKFBCP_00395 340567 4 Skin 0.10 protein_coding synonymous_variant LOW 324T>G Leu108Leu
M0106820 IMMKFBCP_00395 340669 5 Skin 0.13 protein_coding synonymous_variant LOW 222A>G Glu74Glu
M0106821 IMMKFBCP_00395 340678 4 Skin 0.10 protein_coding synonymous_variant LOW 213A>G Glu71Glu
M0106822 IMMKFBCP_00395 340698 4 Skin 0.10 protein_coding missense_variant MODERATE 193G>C Gly65Arg
M0106823 IMMKFBCP_00395 340723 4 Skin 0.10 protein_coding synonymous_variant LOW 168T>C Ser56Ser
M0106824 IMMKFBCP_00390 341323 4 Skin 0.10 protein_coding upstream_gene_variant MODIFIER -4946A>C None
M0106825 IMMKFBCP_00390 341339 5 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -4962T>C None
M0106826 IMMKFBCP_00390 341341 5 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -4964G>A None
M0106827 IMMKFBCP_00390 341351 5 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -4974C>G None
M0106828 IMMKFBCP_00396 341372 5 Skin 0.13 protein_coding synonymous_variant LOW 21C>T Ala7Ala
M0106829 IMMKFBCP_00398 342451 7 Skin 0.18 protein_coding missense_variant MODERATE 68A>G Gln23Arg
M0106830 IMMKFBCP_00391 337035 5 Skin 0.13 protein_coding missense_variant MODERATE 320A>G Asn107Ser
M0106831 IMMKFBCP_00391 337096 4 Skin 0.10 protein_coding missense_variant MODERATE 259C>A Arg87Ser
M0106832 IMMKFBCP_00391 337100 4 Skin 0.10 protein_coding synonymous_variant LOW 255C>A Gly85Gly
M0106833 IMMKFBCP_00392 338082 4 Skin 0.10 protein_coding synonymous_variant LOW 277C>T Leu93Leu
M0106834 IMMKFBCP_00392 338270 7 Skin 0.18 protein_coding missense_variant MODERATE 89C>G Thr30Ser
M0106835 IMMKFBCP_00392 337495 3 Skin 0.08 protein_coding synonymous_variant LOW 864G>C Leu288Leu
M0106836 IMMKFBCP_00394 339464 10 Skin 0.26 protein_coding missense_variant MODERATE 603C>A His201Gln
M0106837 IMMKFBCP_00394 339506 6 Skin 0.15 protein_coding synonymous_variant LOW 561C>A Gly187Gly
M0106838 IMMKFBCP_00392 337716 3 Skin 0.08 protein_coding missense_variant MODERATE 643C>G Gln215Glu
M0106839 IMMKFBCP_00392 337717 3 Skin 0.08 protein_coding synonymous_variant LOW 642C>T Thr214Thr
M0106840 IMMKFBCP_00394 339713 7 Skin 0.18 protein_coding synonymous_variant LOW 354G>A Ser118Ser
M0106841 IMMKFBCP_00390 340930 4 Skin 0.10 protein_coding upstream_gene_variant MODIFIER -4553C>G None
M0106842 IMMKFBCP_00398 342839 4 Skin 0.10 protein_coding synonymous_variant LOW 456G>A Gly152Gly






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
IMMKFBCP_00136 Tellurium (Te) 71.3 2.9e-138 1 340 0.9942 0.9884 experiment
IMMKFBCP_00137 Tellurium (Te) 70.3 3.6e-77 1 192 1.0000 1.0000 experiment
IMMKFBCP_00138 Tellurium (Te) 70.7 5.6e-78 1 191 0.9948 1.0000 experiment
IMMKFBCP_00216 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
IMMKFBCP_00136 Tellurium (Te) 72.2 5e-139 1 340 0.9942 0.9884 prediction
IMMKFBCP_00137 Tellurium (Te) 72.4 1e-77 1 192 1.0000 1.0000 prediction
IMMKFBCP_00138 Tellurium (Te) 71.2 5.7e-76 1 191 0.9948 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
IMMKFBCP_00192 ARO:3002594 100 2.6e-139 1 184 1.0000 1.0000 aminoglycoside antibiotic AAC(6') antibiotic inactivation
IMMKFBCP_00193 ARO:3002799 100 1.34e-79 1 218 1.0000 1.0000 fluoroquinolone antibiotic quinolone resistance protein (qnr) antibiotic target protection
IMMKFBCP_00199 ARO:3002272 100 1.91e-193 1 266 1.0000 1.0000 carbapenem VIM beta-lactamase antibiotic inactivation
IMMKFBCP_00202 ARO:3002641 100 4.76e-210 1 271 1.0000 1.0000 aminoglycoside antibiotic APH(3') antibiotic inactivation
IMMKFBCP_00207 ARO:3003741 100 1.87e-214 1 294 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) antibiotic inactivation
IMMKFBCP_00208 ARO:3003109 100 0 1 491 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
IMMKFBCP_00215 ARO:3000410 100 2.94e-199 1 279 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
IMMKFBCP_00216 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
IMMKFBCP_00218 ARO:3002676 99.5 3.47e-159 1 210 1.0000 1.0000 phenicol antibiotic chloramphenicol acetyltransferase (CAT) antibiotic inactivation
IMMKFBCP_00219 ARO:3000361 98.8 1.72e-287 1 406 1.0000 1.0000 macrolide antibiotic macrolide esterase antibiotic inactivation
IMMKFBCP_00220 ARO:3005494 100 5.71e-185 1 246 1.0000 1.0000 carbapenem SIM beta-lactamase 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
IMMKFBCP_00029 PHI:10380 RecA 72.9 2.4e-139 1 328 0.9507 0.9398 nematodes nosocomial infection DNA strand exchange and recombination protein reduced virulence
IMMKFBCP_00194 PHI:9804 int 100 4e-14 1 37 0.1098 1.0000 rodents gastroenteritis integrase reduced virulence
IMMKFBCP_00200 PHI:9804 int 100 3.8e-14 1 37 0.1160 1.0000 rodents gastroenteritis integrase reduced virulence
IMMKFBCP_00221 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
IMMKFBCP_00256 QUG92740.1|GH23 100 1.29e-167 1 234 1 1
IMMKFBCP_00461 UUC21733.1|GT2 97.1 3.17e-192 1 273 1 1





        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
IMMKFBCP_00136 2.A.109.1.1 71.9 1.8e-139 1 340 0.9884 0.9884 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.109 The Tellurium Ion Resistance (TerC) Family