Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1163
  Reference Plasmid   NZ_CP124501.1
  Reference Plasmid Size   86455
  Reference Plasmid GC Content   0.50
  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
M0198606 ADIJOAGC_00087 76107 3 Gut 1.00 protein_coding synonymous_variant LOW 60T>C Ile20Ile
M0198607 ADIJOAGC_00087 76266 3 Gut 1.00 protein_coding synonymous_variant LOW 219T>C Ser73Ser
M0198608 ADIJOAGC_00087 76278 3 Gut 1.00 protein_coding synonymous_variant LOW 231T>C Phe77Phe
M0198609 ADIJOAGC_00087 76410 3 Gut 1.00 protein_coding synonymous_variant LOW 363C>T His121His
M0198610 ADIJOAGC_00087 76492 3 Gut 1.00 protein_coding missense_variant MODERATE 445C>A Arg149Ser
M0198611 ADIJOAGC_00087 76671 3 Gut 1.00 protein_coding synonymous_variant LOW 624C>T Ala208Ala
M0198612 ADIJOAGC_00087 76773 3 Gut 1.00 protein_coding synonymous_variant LOW 726T>C Val242Val
M0198613 ADIJOAGC_00087 76806 3 Gut 1.00 protein_coding synonymous_variant LOW 759T>C Val253Val
M0198614 ADIJOAGC_00087 76854 3 Gut 1.00 protein_coding synonymous_variant LOW 807A>G Glu269Glu
M0198615 ADIJOAGC_00087 76929 3 Gut 1.00 protein_coding synonymous_variant LOW 882G>A Thr294Thr
M0198616 ADIJOAGC_00087 76953 3 Gut 1.00 protein_coding synonymous_variant LOW 906C>T Asp302Asp
M0198617 ADIJOAGC_00087 77115 3 Gut 1.00 protein_coding synonymous_variant LOW 1068G>A Ser356Ser
M0198618 ADIJOAGC_00088 77228 3 Gut 1.00 protein_coding synonymous_variant LOW 9G>A Glu3Glu
M0198619 ADIJOAGC_00088 77531 3 Gut 1.00 protein_coding synonymous_variant LOW 312A>C Gly104Gly
M0198620 ADIJOAGC_00088 77678 3 Gut 1.00 protein_coding synonymous_variant LOW 459G>A Leu153Leu
M0198621 ADIJOAGC_00088 77753 3 Gut 1.00 protein_coding synonymous_variant LOW 534C>T Ser178Ser
M0198622 ADIJOAGC_00088 77855 3 Gut 1.00 protein_coding synonymous_variant LOW 636G>A Val212Val
M0198623 ADIJOAGC_00088 77870 3 Gut 1.00 protein_coding synonymous_variant LOW 651A>C Ile217Ile
M0198624 ADIJOAGC_00088 77880 3 Gut 1.00 protein_coding synonymous_variant LOW 661T>C Leu221Leu
M0198625 ADIJOAGC_00088 77997 3 Gut 1.00 protein_coding missense_variant MODERATE 778A>G Lys260Glu
M0198626 ADIJOAGC_00082 78093 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4522T>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
ADIJOAGC_00056 VFG001445 TraJ 100 6e-116 1 200 0.8772 0.995 Invasion unknown protein experiment
ADIJOAGC_00056 VFG001445 TraJ 100 4.5e-115 1 200 0.8772 0.995 Invasion unknown 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
ADIJOAGC_00008 ARO:3000873 100 5.12e-208 1 286 1.0000 1.0000 monobactam TEM beta-lactamase 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






        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
ADIJOAGC_00058 AML12690.1|GH23 100 7.04e-124 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