Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C610
  Reference Plasmid   NZ_CP035881.1
  Reference Plasmid Size   81772
  Reference Plasmid GC Content   0.52
  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
M0169482 OPHDFNHI_00064 49715 3 Gut 0.60 protein_coding synonymous_variant LOW 504C>T Ser168Ser
M0169483 OPHDFNHI_00064 49817 3 Gut 0.60 protein_coding synonymous_variant LOW 606C>T Gly202Gly
M0169484 OPHDFNHI_00064 49832 3 Gut 0.60 protein_coding synonymous_variant LOW 621A>G Ala207Ala
M0169485 OPHDFNHI_00064 50732 3 Gut 0.60 protein_coding synonymous_variant LOW 1521C>T Gly507Gly
M0169486 OPHDFNHI_00064 50813 3 Gut 0.60 protein_coding synonymous_variant LOW 1602T>A Gly534Gly
M0169487 OPHDFNHI_00066 51434 3 Gut 0.60 protein_coding synonymous_variant LOW 135T>C Pro45Pro
M0169488 OPHDFNHI_00066 51665 3 Gut 0.60 protein_coding synonymous_variant LOW 366A>C Val122Val
M0169489 OPHDFNHI_00066 51845 3 Gut 0.60 protein_coding synonymous_variant LOW 546A>C Gly182Gly
M0169490 OPHDFNHI_00066 51989 3 Gut 0.60 protein_coding synonymous_variant LOW 690T>C Asp230Asp
M0169491 OPHDFNHI_00068 52527 3 Gut 0.60 protein_coding missense_variant MODERATE 188C>T Pro63Leu
M0169492 OPHDFNHI_00068 52749 3 Gut 0.60 protein_coding upstream_gene_variant MODIFIER -35C>T None
M0169493 OPHDFNHI_00070 53175 3 Gut 0.60 protein_coding missense_variant MODERATE 110T>C Val37Ala
M0169494 OPHDFNHI_00070 53398 3 Gut 0.60 protein_coding synonymous_variant LOW 333T>G Gly111Gly
M0169495 OPHDFNHI_00070 53506 3 Gut 0.60 protein_coding synonymous_variant LOW 441A>G Thr147Thr






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
OPHDFNHI_00016 VFG041000 AAI/SCI-II T6SS 91.5 3.1e-98 1 188 1.0 1 Effector delivery system hypothetical 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
OPHDFNHI_00098 ARO:3002660 99.6 1.07e-205 1 278 1.0000 1.0000 aminoglycoside antibiotic APH(6) antibiotic inactivation
OPHDFNHI_00099 ARO:3002639 99.6 5.98e-202 1 267 1.0000 1.0000 aminoglycoside antibiotic APH(3'') antibiotic inactivation






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
OPHDFNHI_00017 PHI:3113 stbA 97.9 2.8e-182 1 326 1.0000 1.0000 rodents neonatal meningitis stability protein for the plasmid 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
OPHDFNHI_00039 AWF09232.1|GH23 100 2.02e-123 1 169 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