Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1335
  Reference Plasmid   NZ_KU932026.1
  Reference Plasmid Size   87848
  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
M0206725 BGBIKFCF_00013 14946 5 Gut 1.00 protein_coding synonymous_variant LOW 538C>T Leu180Leu
M0206726 BGBIKFCF_00014 15616 5 Gut 1.00 protein_coding missense_variant MODERATE 524C>T Thr175Ile
M0206727 BGBIKFCF_00014 15710 5 Gut 1.00 protein_coding missense_variant MODERATE 430A>C Ser144Arg
M0206728 BGBIKFCF_00014 15831 5 Gut 1.00 protein_coding synonymous_variant LOW 309A>G Arg103Arg
M0206729 BGBIKFCF_00015 16396 5 Gut 1.00 protein_coding missense_variant MODERATE 289G>A Val97Ile
M0206730 BGBIKFCF_00015 16499 5 Gut 1.00 protein_coding synonymous_variant LOW 186G>A Gly62Gly
M0206731 BGBIKFCF_00016 16757 5 Gut 1.00 protein_coding synonymous_variant LOW 552G>A Thr184Thr
M0206732 BGBIKFCF_00016 17220 5 Gut 1.00 protein_coding missense_variant MODERATE 89G>C Gly30Ala
M0206733 BGBIKFCF_00017 17551 5 Gut 1.00 protein_coding synonymous_variant LOW 873T>C Ser291Ser
M0206734 BGBIKFCF_00018 19084 5 Gut 1.00 protein_coding synonymous_variant LOW 906C>T Asp302Asp
M0206735 BGBIKFCF_00020 20701 5 Gut 1.00 protein_coding missense_variant MODERATE 1034T>G Val345Gly
M0206736 BGBIKFCF_00020 21347 5 Gut 1.00 protein_coding missense_variant MODERATE 388A>G Asn130Asp
M0206737 BGBIKFCF_00021 22323 5 Gut 1.00 protein_coding missense_variant MODERATE 1087G>A Val363Ile
M0206738 BGBIKFCF_00021 22927 5 Gut 1.00 protein_coding synonymous_variant LOW 483T>G Thr161Thr
M0206739 BGBIKFCF_00025 25555 5 Gut 1.00 protein_coding missense_variant MODERATE 293T>C Ile98Thr
M0206740 BGBIKFCF_00025 25564 5 Gut 1.00 protein_coding missense_variant MODERATE 284G>T Ser95Ile
M0206741 BGBIKFCF_00025 25599 5 Gut 1.00 protein_coding synonymous_variant LOW 249A>T Thr83Thr
M0206742 BGBIKFCF_00025 25772 5 Gut 1.00 protein_coding missense_variant MODERATE 76G>A Val26Ile
M0206743 BGBIKFCF_00025 25778 5 Gut 1.00 protein_coding missense_variant MODERATE 70A>T Ile24Phe
M0206744 BGBIKFCF_00025 25782 5 Gut 1.00 protein_coding synonymous_variant LOW 66T>G Ser22Ser
M0206745 BGBIKFCF_00025 25792 5 Gut 1.00 protein_coding missense_variant MODERATE 56G>C Gly19Ala
M0206746 BGBIKFCF_00020 25922 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4188A>T None
M0206747 BGBIKFCF_00026 26221 5 Gut 1.00 protein_coding synonymous_variant LOW 48A>G Ala16Ala
M0206748 BGBIKFCF_00026 26223 5 Gut 1.00 protein_coding missense_variant MODERATE 46G>A Ala16Thr
M0206749 BGBIKFCF_00026 26238 5 Gut 1.00 protein_coding missense_variant MODERATE 31A>G Ile11Val
M0206750 BGBIKFCF_00026 26239 5 Gut 1.00 protein_coding synonymous_variant LOW 30A>G Gln10Gln
M0206751 BGBIKFCF_00026 26242 5 Gut 1.00 protein_coding synonymous_variant LOW 27G>A Leu9Leu
M0206752 BGBIKFCF_00020 26295 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4561C>T None
M0206753 BGBIKFCF_00020 26321 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4587G>C None
M0206754 BGBIKFCF_00020 26354 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4620T>C None
M0206755 BGBIKFCF_00020 26369 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4635C>A None
M0206756 BGBIKFCF_00020 26370 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4636A>G None
M0206757 BGBIKFCF_00020 26383 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4649C>T None
M0206758 BGBIKFCF_00027 26719 5 Gut 1.00 protein_coding missense_variant MODERATE 263T>C Leu88Pro
M0206759 BGBIKFCF_00024 29935 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4381T>A None
M0206760 BGBIKFCF_00024 29938 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4384C>T None
M0206761 BGBIKFCF_00024 29940 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4386A>C None
M0206762 BGBIKFCF_00024 29958 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4404G>A None
M0206763 BGBIKFCF_00024 30255 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4701A>G None
M0206764 BGBIKFCF_00031 30649 5 Gut 1.00 protein_coding synonymous_variant LOW 189C>T Arg63Arg
M0206765 BGBIKFCF_00031 30655 5 Gut 1.00 protein_coding synonymous_variant LOW 195C>T Arg65Arg
M0206766 BGBIKFCF_00031 30661 5 Gut 1.00 protein_coding synonymous_variant LOW 201A>G Glu67Glu
M0206767 BGBIKFCF_00031 30708 5 Gut 1.00 protein_coding missense_variant MODERATE 248C>A Ala83Glu
M0206768 BGBIKFCF_00031 30893 5 Gut 1.00 protein_coding missense_variant MODERATE 433A>G Ile145Val
M0206769 BGBIKFCF_00031 30965 5 Gut 1.00 protein_coding synonymous_variant LOW 505C>A Arg169Arg
M0206770 BGBIKFCF_00027 31696 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4715G>A None
M0206771 BGBIKFCF_00027 31730 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4749C>T None
M0206772 BGBIKFCF_00027 31789 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4808G>A None
M0206773 BGBIKFCF_00027 31822 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4841C>T None
M0206774 BGBIKFCF_00027 31836 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4855T>C None
M0206775 BGBIKFCF_00028 31982 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4145T>G None
M0206776 BGBIKFCF_00028 32152 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4315C>A None
M0206777 BGBIKFCF_00028 32182 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4345C>T None
M0206778 BGBIKFCF_00028 32203 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4366C>T None
M0206779 BGBIKFCF_00028 32227 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4390T>C None
M0206780 BGBIKFCF_00028 32232 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4395G>C None
M0206781 BGBIKFCF_00028 32255 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4418A>G None
M0206782 BGBIKFCF_00028 32256 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4419G>A None
M0206783 BGBIKFCF_00028 32258 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4421C>T None
M0206784 BGBIKFCF_00028 32271 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4434T>C None
M0206785 BGBIKFCF_00028 32296 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4459G>T None
M0206786 BGBIKFCF_00028 32395 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4558G>A None
M0206787 BGBIKFCF_00032 32465 5 Gut 1.00 protein_coding synonymous_variant LOW 15C>T Thr5Thr
M0206788 BGBIKFCF_00032 32483 5 Gut 1.00 protein_coding synonymous_variant LOW 33A>C Val11Val
M0206789 BGBIKFCF_00032 32534 5 Gut 1.00 protein_coding synonymous_variant LOW 84C>A Ala28Ala
M0206790 BGBIKFCF_00032 32648 5 Gut 1.00 protein_coding synonymous_variant LOW 198C>T Ser66Ser
M0206791 BGBIKFCF_00032 32650 5 Gut 1.00 protein_coding missense_variant MODERATE 200G>A Gly67Glu
M0206792 BGBIKFCF_00033 32791 5 Gut 1.00 protein_coding synonymous_variant LOW 63G>A Val21Val
M0206793 BGBIKFCF_00033 32812 5 Gut 1.00 protein_coding synonymous_variant LOW 84C>T Ala28Ala
M0206794 BGBIKFCF_00033 32824 5 Gut 1.00 protein_coding synonymous_variant LOW 96A>G Val32Val
M0206795 BGBIKFCF_00033 32827 5 Gut 1.00 protein_coding synonymous_variant LOW 99G>A Gln33Gln
M0206796 BGBIKFCF_00033 32875 5 Gut 1.00 protein_coding synonymous_variant LOW 147A>G Gly49Gly
M0206797 BGBIKFCF_00033 32884 5 Gut 1.00 protein_coding synonymous_variant LOW 156G>A Leu52Leu
M0206798 BGBIKFCF_00033 32955 5 Gut 1.00 protein_coding missense_variant MODERATE 227A>G Asp76Gly
M0206799 BGBIKFCF_00029 33051 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4428C>A None
M0206800 BGBIKFCF_00029 33065 5 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4442G>C None
M0206801 BGBIKFCF_00013 15267 4 Gut 0.80 protein_coding missense_variant MODERATE 217A>C Thr73Pro
M0206802 BGBIKFCF_00015 16622 4 Gut 0.80 protein_coding synonymous_variant LOW 63A>C Pro21Pro
M0206803 BGBIKFCF_00016 16727 4 Gut 0.80 protein_coding synonymous_variant LOW 582T>G Gly194Gly
M0206804 BGBIKFCF_00020 21214 4 Gut 0.80 protein_coding missense_variant MODERATE 521A>C Asp174Ala
M0206805 BGBIKFCF_00022 23446 4 Gut 0.80 protein_coding missense_variant MODERATE 415G>A Gly139Ser
M0206806 BGBIKFCF_00023 24745 4 Gut 0.80 protein_coding synonymous_variant LOW 183T>C Thr61Thr
M0206807 BGBIKFCF_00021 27868 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -4459T>G None
M0206808 BGBIKFCF_00023 29910 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -4983G>A 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
BGBIKFCF_00040 VFG044067 Colicin Ia 98.9 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
BGBIKFCF_00015 ANC59138.1|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
BGBIKFCF_00001 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
BGBIKFCF_00004 3.A.7.10.1 99 4.6e-56 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
BGBIKFCF_00005 3.A.7.10.1 100 3.3e-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
BGBIKFCF_00006 3.A.7.10.1 99.6 7.3e-160 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
BGBIKFCF_00007 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
BGBIKFCF_00040 1.C.1.1.1 100 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
BGBIKFCF_00079 3.A.7.10.1 99.9 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
BGBIKFCF_00080 3.A.7.10.1 99.7 1.2e-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
BGBIKFCF_00081 3.A.7.10.1 99.5 7.8e-243 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
BGBIKFCF_00082 1.E.53.1.10 90.7 4.2e-16 9 51 0.8431 1.0000 1 Channels/Pores 1.E Holins 1.E.53 The Toxic Hok/Gef Protein (Hok/Gef) Family
BGBIKFCF_00087 9.B.40.1.2 87 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
BGBIKFCF_00098 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
BGBIKFCF_00099 3.A.7.10.1 100 7.6e-41 1 79 1.0000 0.8229 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