Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C875
  Reference Plasmid   NZ_CP072230.1
  Reference Plasmid Size   102225
  Reference Plasmid GC Content   0.43
  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
M0185743 GKHJLIKK_00074 66298 3 Gut 0.03 protein_coding upstream_gene_variant MODIFIER -4873T>A None
M0185744 GKHJLIKK_00074 66313 3 Gut 0.03 protein_coding upstream_gene_variant MODIFIER -4888A>G None
M0185745 GKHJLIKK_00074 66322 3 Gut 0.03 protein_coding upstream_gene_variant MODIFIER -4897C>A None
M0185746 GKHJLIKK_00074 66334 3 Gut 0.03 protein_coding upstream_gene_variant MODIFIER -4909G>A None
M0185747 GKHJLIKK_00074 66345 3 Gut 0.03 protein_coding upstream_gene_variant MODIFIER -4920G>A None
M0185748 GKHJLIKK_00087 68102 3 Gut 0.03 protein_coding synonymous_variant LOW 621C>T Asp207Asp
M0185749 GKHJLIKK_00087 68185 3 Gut 0.03 protein_coding missense_variant MODERATE 704C>T Thr235Met
M0185750 GKHJLIKK_00088 68243 3 Gut 0.03 protein_coding missense_variant MODERATE 7G>A Ala3Thr
M0185751 GKHJLIKK_00088 68280 3 Gut 0.03 protein_coding missense_variant MODERATE 44C>T Ala15Val
M0185752 GKHJLIKK_00088 68289 3 Gut 0.03 protein_coding missense_variant MODERATE 53G>A Ser18Asn
M0185753 GKHJLIKK_00088 68309 3 Gut 0.03 protein_coding missense_variant MODERATE 73T>C Trp25Arg
M0185754 GKHJLIKK_00088 68336 3 Gut 0.03 protein_coding missense_variant MODERATE 100A>G Thr34Ala
M0185755 GKHJLIKK_00028 26326 3 Gut 0.03 protein_coding synonymous_variant LOW 273G>A Gly91Gly
M0185756 GKHJLIKK_00068 57706 3 Gut 0.03 protein_coding synonymous_variant LOW 1041G>A Lys347Lys
M0185757 GKHJLIKK_00073 60454 3 Gut 0.03 protein_coding missense_variant MODERATE 137A>T Gln46Leu
M0185758 GKHJLIKK_00073 60474 3 Gut 0.03 protein_coding missense_variant MODERATE 157A>G Ile53Val






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
GKHJLIKK_00022 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
GKHJLIKK_00009 QUT64421.1|GT4 100 1.11e-279 1 378 1 1
GKHJLIKK_00011 QUT55894.1|GT2 100 1.57e-228 1 304 1 1
GKHJLIKK_00014 QRP91616.1|GT4 100 5.41e-274 1 366 1 1
GKHJLIKK_00015 BBK89584.1|GT2 100 6.37e-226 1 300 1 1
GKHJLIKK_00016 QRP91614.1|GT4 100 4.79e-292 1 391 1 1
GKHJLIKK_00017 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