Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1434
  Reference Plasmid   NZ_OY725776.1
  Reference Plasmid Size   29744
  Reference Plasmid GC Content   0.40
  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
M0210848 KMLBIAGA_00001 2192 5 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -440A>G None
M0210849 KMLBIAGA_00027 27905 3 Gut 0.19 protein_coding synonymous_variant LOW 660C>T Val220Val
M0210850 KMLBIAGA_00001 2277 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -525C>T None
M0210851 KMLBIAGA_00001 2403 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -651C>T None
M0210852 KMLBIAGA_00002 2523 3 Gut 0.19 protein_coding synonymous_variant LOW 405A>C Ala135Ala
M0210853 KMLBIAGA_00002 2752 3 Gut 0.19 protein_coding missense_variant MODERATE 176A>C Lys59Thr
M0210854 KMLBIAGA_00002 2757 3 Gut 0.19 protein_coding synonymous_variant LOW 171A>G Pro57Pro
M0210855 KMLBIAGA_00002 2790 3 Gut 0.19 protein_coding missense_variant MODERATE 138C>G His46Gln
M0210856 KMLBIAGA_00002 2811 3 Gut 0.19 protein_coding synonymous_variant LOW 117C>T Ile39Ile
M0210857 KMLBIAGA_00003 2980 3 Gut 0.19 protein_coding synonymous_variant LOW 651T>G Ala217Ala
M0210858 KMLBIAGA_00003 3511 3 Gut 0.19 protein_coding synonymous_variant LOW 120G>T Gly40Gly
M0210859 KMLBIAGA_00001 3716 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -1964A>T None
M0210860 KMLBIAGA_00001 3728 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -1976C>T None
M0210861 KMLBIAGA_00001 3754 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2002T>C None
M0210862 KMLBIAGA_00001 3762 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2010T>A None
M0210863 KMLBIAGA_00001 3769 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2017G>A None
M0210864 KMLBIAGA_00001 3770 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2018T>C None
M0210865 KMLBIAGA_00001 3854 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2102G>A None
M0210866 KMLBIAGA_00001 3859 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2107G>A None
M0210867 KMLBIAGA_00001 3862 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2110G>A None
M0210868 KMLBIAGA_00001 3898 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2146T>G None
M0210869 KMLBIAGA_00001 3934 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2182G>A None
M0210870 KMLBIAGA_00001 3942 3 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2190C>T None
M0210871 KMLBIAGA_00004 4007 4 Gut 0.25 protein_coding missense_variant MODERATE 22A>C Thr8Pro
M0210872 KMLBIAGA_00005 4386 4 Gut 0.25 protein_coding synonymous_variant LOW 18A>G Gln6Gln
M0210873 KMLBIAGA_00005 4425 3 Gut 0.19 protein_coding synonymous_variant LOW 57T>C Ile19Ile
M0210874 KMLBIAGA_00005 4472 3 Gut 0.19 protein_coding missense_variant MODERATE 104A>G Tyr35Cys
M0210875 KMLBIAGA_00005 4482 3 Gut 0.19 protein_coding synonymous_variant LOW 114T>C Thr38Thr
M0210876 KMLBIAGA_00005 4677 3 Gut 0.19 protein_coding synonymous_variant LOW 309A>G Leu103Leu
M0210877 KMLBIAGA_00005 4722 3 Gut 0.19 protein_coding synonymous_variant LOW 354A>G Thr118Thr
M0210878 KMLBIAGA_00005 4755 3 Gut 0.19 protein_coding synonymous_variant LOW 387A>G Gly129Gly
M0210879 KMLBIAGA_00006 6207 3 Gut 0.19 protein_coding synonymous_variant LOW 411T>C Asp137Asp
M0210880 KMLBIAGA_00006 6213 3 Gut 0.19 protein_coding synonymous_variant LOW 417T>G Arg139Arg
M0210881 KMLBIAGA_00006 6243 3 Gut 0.19 protein_coding synonymous_variant LOW 447A>G Glu149Glu
M0210882 KMLBIAGA_00006 6280 3 Gut 0.19 protein_coding missense_variant MODERATE 484G>C Val162Leu
M0210883 KMLBIAGA_00006 6372 3 Gut 0.19 protein_coding synonymous_variant LOW 576A>G Lys192Lys
M0210884 KMLBIAGA_00006 6476 3 Gut 0.19 protein_coding missense_variant MODERATE 680T>C Val227Ala
M0210885 KMLBIAGA_00006 6570 3 Gut 0.19 protein_coding synonymous_variant LOW 774T>C Ala258Ala
M0210886 KMLBIAGA_00006 6642 3 Gut 0.19 protein_coding synonymous_variant LOW 846G>A Pro282Pro
M0210887 KMLBIAGA_00006 6660 3 Gut 0.19 protein_coding synonymous_variant LOW 864G>A Thr288Thr
M0210888 KMLBIAGA_00006 6663 3 Gut 0.19 protein_coding synonymous_variant LOW 867C>T Cys289Cys
M0210889 KMLBIAGA_00006 6673 3 Gut 0.19 protein_coding missense_variant MODERATE 877G>T Ala293Ser
M0210890 KMLBIAGA_00006 6744 3 Gut 0.19 protein_coding synonymous_variant LOW 948G>A Gly316Gly
M0210891 KMLBIAGA_00002 6806 4 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -3879T>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







        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
KMLBIAGA_00023 PHI:3281 AS87_04050 71.4 3e-136 1 325 1.0000 1.0000 birds fibrinous serositis; caseous salpingitis; vegetative disorder lipopolysaccharide biosynthesis and pathogenicity 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
KMLBIAGA_00012 QUT64421.1|GT4 100 1.11e-279 1 378 1 1
KMLBIAGA_00014 QUT55894.1|GT2 100 1.57e-228 1 304 1 1
KMLBIAGA_00016 QRP91616.1|GT4 100 5.41e-274 1 366 1 1
KMLBIAGA_00017 BBK89584.1|GT2 100 6.37e-226 1 300 1 1
KMLBIAGA_00018 QRP91614.1|GT4 100 4.79e-292 1 391 1 1
KMLBIAGA_00019 QUT83193.1|GT4 100 0 1 444 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