Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1412
  Reference Plasmid   NZ_OP378633.1
  Reference Plasmid Size   6077
  Reference Plasmid GC Content   0.49
  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
M0209425 JAAJIHMJ_00002 136 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -665T>C None
M0209426 JAAJIHMJ_00002 205 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -596C>T None
M0209427 JAAJIHMJ_00001 267 3 Gut 1.00 protein_coding missense_variant MODERATE 358A>C Ile120Leu
M0209428 JAAJIHMJ_00001 370 3 Gut 1.00 protein_coding synonymous_variant LOW 255A>G Arg85Arg
M0209429 JAAJIHMJ_00001 692 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -68G>A None
M0209430 JAAJIHMJ_00002 956 3 Gut 1.00 protein_coding synonymous_variant LOW 156A>T Ser52Ser
M0209431 JAAJIHMJ_00002 971 3 Gut 1.00 protein_coding synonymous_variant LOW 171T>G Ala57Ala
M0209432 JAAJIHMJ_00001 2283 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -1659C>T None
M0209433 JAAJIHMJ_00001 2451 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -1827A>G None
M0209434 JAAJIHMJ_00004 3216 3 Gut 1.00 protein_coding missense_variant MODERATE 733T>G Tyr245Asp
M0209435 JAAJIHMJ_00004 3571 3 Gut 1.00 protein_coding missense_variant MODERATE 1088A>C Lys363Thr
M0209436 JAAJIHMJ_00004 3901 3 Gut 1.00 protein_coding missense_variant MODERATE 1418C>T Ala473Val
M0209437 JAAJIHMJ_00004 3917 3 Gut 1.00 protein_coding synonymous_variant LOW 1434T>C Arg478Arg
M0209438 JAAJIHMJ_00005 4447 3 Gut 1.00 protein_coding synonymous_variant LOW 234T>C Asn78Asn
M0209439 JAAJIHMJ_00001 4974 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4350G>A None
M0209440 JAAJIHMJ_00001 4988 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4364T>G None
M0209441 JAAJIHMJ_00001 4989 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4365C>T None
M0209442 JAAJIHMJ_00001 4992 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4368C>T None
M0209443 JAAJIHMJ_00001 4993 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4369C>A None
M0209444 JAAJIHMJ_00001 4994 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4370C>T None
M0209445 JAAJIHMJ_00001 5026 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4402A>C None
M0209446 JAAJIHMJ_00001 5030 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4406C>A None
M0209447 JAAJIHMJ_00001 5039 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4415G>A None
M0209448 JAAJIHMJ_00001 5048 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4424A>T None
M0209449 JAAJIHMJ_00001 5053 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4429A>G None
M0209450 JAAJIHMJ_00001 5054 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4430A>G None
M0209451 JAAJIHMJ_00001 5061 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4437C>A None
M0209452 JAAJIHMJ_00001 5218 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4594G>A None
M0209453 JAAJIHMJ_00001 5245 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4621G>A None
M0209454 JAAJIHMJ_00001 5248 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -4624G>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






        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
JAAJIHMJ_00004 1.C.1.4.1 80.9 2.8e-249 1 575 1.0000 0.9983 1 Channels/Pores 1.C Pore-Forming Toxins (Proteins and Peptides) 1.C.1 The Channel-forming Colicin (Colicin) Family
JAAJIHMJ_00006 1.A.73.1.3 91.5 2.9e-16 1 47 1.0000 1.0000 1 Channels/Pores 1.A α-Type Channels 1.A.73 The Colicin Lysis Protein (CLP) Family