Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C500
  Reference Plasmid   NZ_CP024231.1
  Reference Plasmid Size   82510
  Reference Plasmid GC Content   0.48
  Reference Plasmid Mobility Type   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
M0167468 FGNNAFFC_00078 71006 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -2774C>A None
M0167469 FGNNAFFC_00078 71025 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -2793C>T None
M0167470 FGNNAFFC_00078 71152 5 Gut 0.07 protein_coding upstream_gene_variant MODIFIER -2920A>T None
M0167471 FGNNAFFC_00078 71239 5 Gut 0.07 protein_coding upstream_gene_variant MODIFIER -3007G>A None
M0167472 FGNNAFFC_00015 11893 4 Gut 0.06 protein_coding missense_variant MODERATE 25G>A Glu9Lys
M0167473 FGNNAFFC_00015 11897 4 Gut 0.06 protein_coding missense_variant MODERATE 29A>T Gln10Leu
M0167474 FGNNAFFC_00024 25070 5 Gut 0.07 protein_coding missense_variant MODERATE 511T>A Cys171Ser
M0167475 FGNNAFFC_00024 25071 5 Gut 0.07 protein_coding synonymous_variant LOW 510T>C Ala170Ala
M0167476 FGNNAFFC_00024 25074 5 Gut 0.07 protein_coding synonymous_variant LOW 507G>A Arg169Arg
M0167477 FGNNAFFC_00024 25075 5 Gut 0.07 protein_coding missense_variant MODERATE 506G>A Arg169Gln
M0167478 FGNNAFFC_00024 25083 5 Gut 0.07 protein_coding synonymous_variant LOW 498G>A Leu166Leu
M0167479 FGNNAFFC_00024 25113 5 Gut 0.07 protein_coding synonymous_variant LOW 468G>A Ala156Ala
M0167480 FGNNAFFC_00024 25199 5 Gut 0.07 protein_coding missense_variant MODERATE 382A>G Ile128Val
M0167481 FGNNAFFC_00024 25245 5 Gut 0.07 protein_coding synonymous_variant LOW 336A>C Gly112Gly
M0167482 FGNNAFFC_00024 25290 5 Gut 0.07 protein_coding synonymous_variant LOW 291A>G Gly97Gly
M0167483 FGNNAFFC_00024 25305 5 Gut 0.07 protein_coding synonymous_variant LOW 276C>T Phe92Phe
M0167484 FGNNAFFC_00024 25359 5 Gut 0.07 protein_coding synonymous_variant LOW 222G>A Val74Val
M0167485 FGNNAFFC_00024 25366 4 Gut 0.06 protein_coding missense_variant MODERATE 215C>T Ser72Phe
M0167486 FGNNAFFC_00024 25370 5 Gut 0.07 protein_coding missense_variant MODERATE 211T>G Ser71Ala
M0167487 FGNNAFFC_00024 25377 5 Gut 0.07 protein_coding missense_variant MODERATE 204T>G Asp68Glu
M0167488 FGNNAFFC_00039 34800 7 Gut 0.10 protein_coding missense_variant MODERATE 934G>A Asp312Asn
M0167489 FGNNAFFC_00082 70084 3 Gut 0.04 protein_coding synonymous_variant LOW 210T>C Cys70Cys
M0167490 FGNNAFFC_00054 45090 5 Gut 0.07 protein_coding missense_variant MODERATE 85G>A Glu29Lys






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
FGNNAFFC_00022 VFG034541 EtpA 97.2 0 1 1544 1.0 1.0032 Adherence Two-partner secreted adhesin EtpA experiment
FGNNAFFC_00023 VFG042382 EtpA 98.8 0 1 598 1.0 0.9917 Adherence two-partner secretion transporter EtpB experiment
FGNNAFFC_00022 VFG034541 EtpA 97.2 0 1 1544 1.0 1.0032 Adherence Two-partner secreted adhesin EtpA prediction
FGNNAFFC_00023 VFG042382 EtpA 98.8 0 1 598 1.0 0.9917 Adherence two-partner secretion transporter EtpB prediction
FGNNAFFC_00065 VFG035924 Dispersin 85.1 8.6e-97 1 208 1.0 1 Others ATP-binding protein AatC prediction
FGNNAFFC_00066 VFG035918 Dispersin 87.5 1.6e-124 1 255 1.0 1 Others AatB prediction
FGNNAFFC_00067 VFG035911 Dispersin 79.2 1.8e-175 1 400 1.0 1 Others outer membrane protein AatA 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
FGNNAFFC_00021 APG37925.1|GT41 99.8 0 1 636 1 0.9984





        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
FGNNAFFC_00020 9.B.127.1.3 100 1.4e-94 1 164 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.127 The DUF2919 (PF11143) Family
FGNNAFFC_00023 1.B.20.3.3 98.8 0 1 598 1.0000 0.9917 1 Channels/Pores 1.B β-Barrel Porins 1.B.20 The Two-Partner Secretion (TPS) Family
FGNNAFFC_00056 3.A.7.10.1 97.5 1.2e-64 2 123 0.9919 1.2708 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
FGNNAFFC_00078 9.A.18.1.1 97.7 2.7e-219 1 394 0.9975 0.9704 9 Incompletely Characterized Transport Systems 9.A Recognized transporters of unknown biochemical mechanism 9.A.18 The Peptide Uptake Permease (PUP) Family