Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C728
  Reference Plasmid   NZ_CP053230.1
  Reference Plasmid Size   51398
  Reference Plasmid GC Content   0.41
  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
M0173626 AGDAGIFA_00052 37091 3 Gut 0.75 protein_coding missense_variant MODERATE 3365A>G Lys1122Arg
M0173627 AGDAGIFA_00052 37126 3 Gut 0.75 protein_coding missense_variant MODERATE 3400T>C Ser1134Pro
M0173628 AGDAGIFA_00052 37200 3 Gut 0.75 protein_coding synonymous_variant LOW 3474A>T Ile1158Ile
M0173629 AGDAGIFA_00052 37219 3 Gut 0.75 protein_coding missense_variant MODERATE 3493A>G Ile1165Val
M0173630 AGDAGIFA_00052 37221 3 Gut 0.75 protein_coding missense_variant MODERATE 3495C>G Ile1165Met
M0173631 AGDAGIFA_00052 37230 3 Gut 0.75 protein_coding synonymous_variant LOW 3504A>G Thr1168Thr
M0173632 AGDAGIFA_00052 37305 3 Gut 0.75 protein_coding synonymous_variant LOW 3579G>A Arg1193Arg
M0173633 AGDAGIFA_00052 37324 3 Gut 0.75 protein_coding missense_variant MODERATE 3598G>A Gly1200Ser
M0173634 AGDAGIFA_00052 37326 3 Gut 0.75 protein_coding synonymous_variant LOW 3600T>C Gly1200Gly
M0173635 AGDAGIFA_00052 37389 3 Gut 0.75 protein_coding synonymous_variant LOW 3663T>C Ala1221Ala
M0173636 AGDAGIFA_00052 37478 3 Gut 0.75 protein_coding missense_variant MODERATE 3752G>A Ser1251Asn
M0173637 AGDAGIFA_00052 37482 3 Gut 0.75 protein_coding synonymous_variant LOW 3756A>G Arg1252Arg
M0173638 AGDAGIFA_00052 37543 3 Gut 0.75 protein_coding missense_variant MODERATE 3817G>A Glu1273Lys
M0173639 AGDAGIFA_00052 37563 3 Gut 0.75 protein_coding synonymous_variant LOW 3837T>C Ser1279Ser
M0173640 AGDAGIFA_00052 37579 3 Gut 0.75 protein_coding missense_variant MODERATE 3853T>G Ser1285Ala
M0173641 AGDAGIFA_00052 37602 3 Gut 0.75 protein_coding synonymous_variant LOW 3876A>G Gly1292Gly
M0173642 AGDAGIFA_00052 37617 3 Gut 0.75 protein_coding synonymous_variant LOW 3891T>A Val1297Val
M0173643 AGDAGIFA_00052 37624 3 Gut 0.75 protein_coding missense_variant MODERATE 3898T>G Tyr1300Asp
M0173644 AGDAGIFA_00052 37630 3 Gut 0.75 protein_coding missense_variant MODERATE 3904A>G Asn1302Asp
M0173645 AGDAGIFA_00052 37638 3 Gut 0.75 protein_coding synonymous_variant LOW 3912A>G Lys1304Lys
M0173646 AGDAGIFA_00052 37673 3 Gut 0.75 protein_coding missense_variant MODERATE 3947A>G Tyr1316Cys
M0173647 AGDAGIFA_00053 37769 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -871A>G None
M0173648 AGDAGIFA_00053 37774 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -866G>T None
M0173649 AGDAGIFA_00053 37827 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -813A>G None
M0173650 AGDAGIFA_00053 37876 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -764C>T None
M0173651 AGDAGIFA_00053 37961 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -679T>C None
M0173652 AGDAGIFA_00054 39187 3 Gut 0.75 protein_coding synonymous_variant LOW 69C>T Gly23Gly
M0173653 AGDAGIFA_00054 39222 3 Gut 0.75 protein_coding missense_variant MODERATE 104A>G Gln35Arg
M0173654 AGDAGIFA_00054 39235 3 Gut 0.75 protein_coding synonymous_variant LOW 117A>C Gly39Gly
M0173655 AGDAGIFA_00054 39251 3 Gut 0.75 protein_coding missense_variant MODERATE 133A>C Lys45Gln
M0173656 AGDAGIFA_00054 39361 3 Gut 0.75 protein_coding synonymous_variant LOW 243T>C Asn81Asn
M0173657 AGDAGIFA_00054 39436 3 Gut 0.75 protein_coding missense_variant MODERATE 318A>G Ile106Met
M0173658 AGDAGIFA_00054 39652 3 Gut 0.75 protein_coding synonymous_variant LOW 534C>T Cys178Cys
M0173659 AGDAGIFA_00054 39796 3 Gut 0.75 protein_coding synonymous_variant LOW 678A>G Gly226Gly
M0173660 AGDAGIFA_00054 39838 3 Gut 0.75 protein_coding synonymous_variant LOW 720T>C Asn240Asn
M0173661 AGDAGIFA_00054 39930 3 Gut 0.75 protein_coding missense_variant MODERATE 812T>C Val271Ala
M0173662 AGDAGIFA_00054 39964 3 Gut 0.75 protein_coding synonymous_variant LOW 846G>A Thr282Thr
M0173663 AGDAGIFA_00054 40009 3 Gut 0.75 protein_coding synonymous_variant LOW 891A>T Val297Val
M0173664 AGDAGIFA_00055 40169 3 Gut 0.75 protein_coding synonymous_variant LOW 27G>A Thr9Thr
M0173665 AGDAGIFA_00055 40188 3 Gut 0.75 protein_coding missense_variant MODERATE 46G>T Val16Phe
M0173666 AGDAGIFA_00055 40195 3 Gut 0.75 protein_coding missense_variant MODERATE 53C>T Ser18Leu
M0173667 AGDAGIFA_00055 40352 3 Gut 0.75 protein_coding synonymous_variant LOW 210C>T Ala70Ala
M0173668 AGDAGIFA_00055 40535 3 Gut 0.75 protein_coding synonymous_variant LOW 393T>C Arg131Arg
M0173669 AGDAGIFA_00055 40574 3 Gut 0.75 protein_coding synonymous_variant LOW 432G>A Ala144Ala
M0173670 AGDAGIFA_00055 40605 3 Gut 0.75 protein_coding missense_variant MODERATE 463A>G Thr155Ala
M0173671 AGDAGIFA_00055 40646 3 Gut 0.75 protein_coding synonymous_variant LOW 504C>T Tyr168Tyr
M0173672 AGDAGIFA_00055 40682 3 Gut 0.75 protein_coding synonymous_variant LOW 540A>G Val180Val
M0173673 AGDAGIFA_00055 40856 3 Gut 0.75 protein_coding synonymous_variant LOW 714C>T Tyr238Tyr
M0173674 AGDAGIFA_00055 40982 3 Gut 0.75 protein_coding synonymous_variant LOW 840G>T Pro280Pro
M0173675 AGDAGIFA_00055 40988 3 Gut 0.75 protein_coding synonymous_variant LOW 846A>G Ala282Ala
M0173676 AGDAGIFA_00055 40991 3 Gut 0.75 protein_coding synonymous_variant LOW 849T>G Gly283Gly
M0173677 AGDAGIFA_00055 41021 3 Gut 0.75 protein_coding synonymous_variant LOW 879T>C Ala293Ala
M0173678 AGDAGIFA_00055 41073 3 Gut 0.75 protein_coding missense_variant MODERATE 931G>A Ala311Thr
M0173679 AGDAGIFA_00055 41099 3 Gut 0.75 protein_coding synonymous_variant LOW 957T>C Tyr319Tyr
M0173680 AGDAGIFA_00055 41108 3 Gut 0.75 protein_coding synonymous_variant LOW 966C>T Ser322Ser
M0173681 AGDAGIFA_00055 41114 3 Gut 0.75 protein_coding synonymous_variant LOW 972C>T Thr324Thr
M0173682 AGDAGIFA_00055 41139 3 Gut 0.75 protein_coding synonymous_variant LOW 997C>T Leu333Leu
M0173683 AGDAGIFA_00055 41150 3 Gut 0.75 protein_coding synonymous_variant LOW 1008C>T Tyr336Tyr
M0173684 AGDAGIFA_00055 41165 3 Gut 0.75 protein_coding synonymous_variant LOW 1023C>T Asn341Asn
M0173685 AGDAGIFA_00055 41180 3 Gut 0.75 protein_coding synonymous_variant LOW 1038A>T Gly346Gly
M0173686 AGDAGIFA_00055 41185 3 Gut 0.75 protein_coding missense_variant MODERATE 1043C>T Thr348Ile
M0173687 AGDAGIFA_00055 41186 3 Gut 0.75 protein_coding synonymous_variant LOW 1044A>C Thr348Thr
M0173688 AGDAGIFA_00055 41210 3 Gut 0.75 protein_coding synonymous_variant LOW 1068C>T Asp356Asp
M0173689 AGDAGIFA_00055 41216 3 Gut 0.75 protein_coding synonymous_variant LOW 1074A>G Ser358Ser
M0173690 AGDAGIFA_00055 41231 3 Gut 0.75 protein_coding synonymous_variant LOW 1089C>A Gly363Gly
M0173691 AGDAGIFA_00055 41270 3 Gut 0.75 protein_coding synonymous_variant LOW 1128G>A Glu376Glu






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






        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





        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