Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C693
  Reference Plasmid   NZ_CP048361.1
  Reference Plasmid Size   88513
  Reference Plasmid GC Content   0.50
  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
M0172683 ABPNNNOI_00019 15460 3 Gut 0.33 protein_coding synonymous_variant LOW 990C>G Ala330Ala
M0172684 ABPNNNOI_00019 15472 3 Gut 0.33 protein_coding synonymous_variant LOW 978C>A Ala326Ala
M0172685 ABPNNNOI_00019 15577 4 Gut 0.44 protein_coding synonymous_variant LOW 873G>A Thr291Thr
M0172686 ABPNNNOI_00019 15724 3 Gut 0.33 protein_coding synonymous_variant LOW 726A>G Pro242Pro
M0172687 ABPNNNOI_00019 15739 3 Gut 0.33 protein_coding synonymous_variant LOW 711C>T Ser237Ser
M0172688 ABPNNNOI_00019 15915 3 Gut 0.33 protein_coding synonymous_variant LOW 535C>T Leu179Leu
M0172689 ABPNNNOI_00019 15932 4 Gut 0.44 protein_coding missense_variant MODERATE 518C>T Thr173Ile
M0172690 ABPNNNOI_00019 15967 4 Gut 0.44 protein_coding synonymous_variant LOW 483A>T Gly161Gly
M0172691 ABPNNNOI_00019 16003 3 Gut 0.33 protein_coding synonymous_variant LOW 447A>C Ala149Ala
M0172692 ABPNNNOI_00019 16098 4 Gut 0.44 protein_coding missense_variant MODERATE 352G>A Val118Ile
M0172693 ABPNNNOI_00019 16198 3 Gut 0.33 protein_coding synonymous_variant LOW 252C>T Val84Val
M0172694 ABPNNNOI_00019 16270 3 Gut 0.33 protein_coding synonymous_variant LOW 180G>A Gln60Gln
M0172695 ABPNNNOI_00020 16530 4 Gut 0.44 protein_coding synonymous_variant LOW 357A>G Glu119Glu
M0172696 ABPNNNOI_00020 16641 4 Gut 0.44 protein_coding synonymous_variant LOW 246G>A Glu82Glu
M0172697 ABPNNNOI_00019 17151 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -702T>A None
M0172698 ABPNNNOI_00019 17162 4 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -713G>A None
M0172699 ABPNNNOI_00019 17163 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -714T>A None
M0172700 ABPNNNOI_00019 17190 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -741T>C None
M0172701 ABPNNNOI_00019 17210 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -761T>C None
M0172702 ABPNNNOI_00019 17239 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -790C>T None
M0172703 ABPNNNOI_00019 17241 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -792T>A None
M0172704 ABPNNNOI_00019 17265 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -816T>C None
M0172705 ABPNNNOI_00019 17297 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -848G>A None
M0172706 ABPNNNOI_00019 17311 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -862T>C None
M0172707 ABPNNNOI_00019 17313 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -864A>G None
M0172708 ABPNNNOI_00019 17475 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -1026A>T None
M0172709 ABPNNNOI_00022 17569 4 Gut 0.44 protein_coding synonymous_variant LOW 45A>G Pro15Pro
M0172710 ABPNNNOI_00022 17611 3 Gut 0.33 protein_coding synonymous_variant LOW 87C>T Val29Val
M0172711 ABPNNNOI_00022 18169 4 Gut 0.44 protein_coding synonymous_variant LOW 645T>C Ser215Ser
M0172712 ABPNNNOI_00022 18178 4 Gut 0.44 protein_coding synonymous_variant LOW 654A>G Gly218Gly
M0172713 ABPNNNOI_00022 18181 4 Gut 0.44 protein_coding missense_variant MODERATE 657C>A Asp219Glu
M0172714 ABPNNNOI_00022 18196 4 Gut 0.44 protein_coding synonymous_variant LOW 672T>A Val224Val
M0172715 ABPNNNOI_00022 18236 4 Gut 0.44 protein_coding missense_variant MODERATE 712A>G Ile238Val
M0172716 ABPNNNOI_00022 18260 4 Gut 0.44 protein_coding missense_variant MODERATE 736A>G Ser246Gly
M0172717 ABPNNNOI_00022 18283 4 Gut 0.44 protein_coding synonymous_variant LOW 759T>C Tyr253Tyr
M0172718 ABPNNNOI_00022 18298 3 Gut 0.33 protein_coding synonymous_variant LOW 774T>C Cys258Cys
M0172719 ABPNNNOI_00022 18299 3 Gut 0.33 protein_coding missense_variant MODERATE 775G>A Asp259Asn
M0172720 ABPNNNOI_00022 18337 3 Gut 0.33 protein_coding synonymous_variant LOW 813T>C Leu271Leu
M0172721 ABPNNNOI_00022 18358 4 Gut 0.44 protein_coding synonymous_variant LOW 834G>A Glu278Glu
M0172722 ABPNNNOI_00022 18422 3 Gut 0.33 protein_coding missense_variant MODERATE 898G>A Val300Ile
M0172723 ABPNNNOI_00022 18430 4 Gut 0.44 protein_coding missense_variant MODERATE 906G>T Lys302Asn
M0172724 ABPNNNOI_00022 18442 4 Gut 0.44 protein_coding synonymous_variant LOW 918C>T Tyr306Tyr
M0172725 ABPNNNOI_00022 18445 4 Gut 0.44 protein_coding synonymous_variant LOW 921T>C Gly307Gly
M0172726 ABPNNNOI_00019 18509 4 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -2060T>C None
M0172727 ABPNNNOI_00019 18691 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -2242T>C None
M0172728 ABPNNNOI_00019 18703 3 Gut 0.33 protein_coding upstream_gene_variant MODIFIER -2254C>T None
M0172729 ABPNNNOI_00019 18832 4 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -2383G>C None
M0172730 ABPNNNOI_00023 18882 4 Gut 0.44 protein_coding synonymous_variant LOW 48T>C Ile16Ile
M0172731 ABPNNNOI_00023 19017 4 Gut 0.44 protein_coding synonymous_variant LOW 183G>A Val61Val
M0172732 ABPNNNOI_00027 21592 3 Gut 0.33 protein_coding synonymous_variant LOW 165C>A Arg55Arg






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
ABPNNNOI_00008 VFG044067 Colicin Ia 99.2 0 1 626 1.0 1 Exotoxin colicin-like pore-forming protein prediction







        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
ABPNNNOI_00081 AHF22950.1|GH23 100 5.89e-138 1 186 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
ABPNNNOI_00008 1.C.1.1.1 99.7 0 1 626 1.0000 1.0000 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family
ABPNNNOI_00046 3.A.7.10.1 99.5 0 1 763 1.0000 7.9479 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00047 3.A.7.10.1 99.4 2.8e-207 1 356 1.0000 3.7083 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00048 3.A.7.10.1 100 2.4e-244 1 402 1.0000 4.1875 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00049 1.E.53.1.10 86 3e-14 9 51 0.8431 1.0000 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
ABPNNNOI_00054 9.B.40.1.2 85.9 0 1 722 1.0000 0.9691 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.40 The DotA/TraY (DotA/TraY) Family
ABPNNNOI_00065 3.A.7.10.1 99.7 1.4e-184 1 327 1.0000 3.4063 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00066 3.A.7.10.1 99.6 2.5e-129 1 230 1.0000 2.3958 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00067 3.A.7.10.1 100 1.3e-57 1 115 1.0000 1.1979 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00070 3.A.7.10.1 96.9 2.3e-55 1 96 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00071 3.A.7.10.1 99.7 4.2e-222 1 382 1.0000 3.9792 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00072 3.A.7.10.1 99.3 8.1e-159 1 272 1.0000 2.8333 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family
ABPNNNOI_00073 3.A.7.10.1 100 6e-87 1 152 1.0000 1.5833 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family