Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C884
  Reference Plasmid   NZ_CP072248.1
  Reference Plasmid Size   5625
  Reference Plasmid GC Content   0.39
  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
M0187335 JPOGGLPM_00001 579 3 Gut 1.00 protein_coding synonymous_variant LOW 579G>A Gln193Gln
M0187336 JPOGGLPM_00001 588 3 Gut 1.00 protein_coding synonymous_variant LOW 588A>G Lys196Lys
M0187337 JPOGGLPM_00001 640 3 Gut 1.00 protein_coding missense_variant MODERATE 640G>A Glu214Lys
M0187338 JPOGGLPM_00001 693 3 Gut 1.00 protein_coding synonymous_variant LOW 693T>A Ser231Ser
M0187339 JPOGGLPM_00001 702 3 Gut 1.00 protein_coding synonymous_variant LOW 702T>C Arg234Arg
M0187340 JPOGGLPM_00001 705 3 Gut 1.00 protein_coding synonymous_variant LOW 705A>G Ser235Ser
M0187341 JPOGGLPM_00001 726 3 Gut 1.00 protein_coding synonymous_variant LOW 726G>A Glu242Glu
M0187342 JPOGGLPM_00001 771 3 Gut 1.00 protein_coding synonymous_variant LOW 771T>C Ala257Ala
M0187343 JPOGGLPM_00001 789 3 Gut 1.00 protein_coding synonymous_variant LOW 789T>C Arg263Arg
M0187344 JPOGGLPM_00001 879 3 Gut 1.00 protein_coding synonymous_variant LOW 879T>C Gly293Gly
M0187345 JPOGGLPM_00004 2675 3 Gut 1.00 protein_coding synonymous_variant LOW 1143T>C Asn381Asn
M0187346 JPOGGLPM_00004 2838 3 Gut 1.00 protein_coding missense_variant MODERATE 980A>G Glu327Gly
M0187347 JPOGGLPM_00004 2882 3 Gut 1.00 protein_coding synonymous_variant LOW 936G>A Lys312Lys
M0187348 JPOGGLPM_00004 2942 3 Gut 1.00 protein_coding synonymous_variant LOW 876T>C Thr292Thr
M0187349 JPOGGLPM_00004 2948 3 Gut 1.00 protein_coding synonymous_variant LOW 870T>C Thr290Thr
M0187350 JPOGGLPM_00004 2960 3 Gut 1.00 protein_coding synonymous_variant LOW 858A>G Gly286Gly
M0187351 JPOGGLPM_00004 2969 3 Gut 1.00 protein_coding synonymous_variant LOW 849C>T Asn283Asn
M0187352 JPOGGLPM_00004 3011 3 Gut 1.00 protein_coding synonymous_variant LOW 807G>A Glu269Glu
M0187353 JPOGGLPM_00004 3162 3 Gut 1.00 protein_coding missense_variant MODERATE 656T>C Ile219Thr
M0187354 JPOGGLPM_00004 3181 3 Gut 1.00 protein_coding missense_variant MODERATE 637G>A Val213Ile
M0187355 JPOGGLPM_00004 3249 3 Gut 1.00 protein_coding missense_variant MODERATE 569G>A Gly190Glu
M0187356 JPOGGLPM_00004 3422 3 Gut 1.00 protein_coding synonymous_variant LOW 396C>T Ile132Ile
M0187357 JPOGGLPM_00004 3425 3 Gut 1.00 protein_coding missense_variant MODERATE 393A>G Ile131Met
M0187358 JPOGGLPM_00004 3454 3 Gut 1.00 protein_coding missense_variant MODERATE 364A>G Thr122Ala
M0187359 JPOGGLPM_00004 3488 3 Gut 1.00 protein_coding synonymous_variant LOW 330T>C Asp110Asp
M0187360 JPOGGLPM_00004 3521 3 Gut 1.00 protein_coding synonymous_variant LOW 297G>A Gly99Gly
M0187361 JPOGGLPM_00004 3949 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -132T>C None
M0187362 JPOGGLPM_00004 3950 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -133A>G None
M0187363 JPOGGLPM_00004 3984 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -167T>C None
M0187364 JPOGGLPM_00004 4000 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -183A>G None
M0187365 JPOGGLPM_00004 4004 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -187A>G None
M0187366 JPOGGLPM_00004 4019 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -202A>G None
M0187367 JPOGGLPM_00004 4029 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -212C>T None
M0187368 JPOGGLPM_00004 4107 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -290T>C None
M0187369 JPOGGLPM_00004 4114 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -297C>T None
M0187370 JPOGGLPM_00004 4117 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -300T>C None
M0187371 JPOGGLPM_00004 4165 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -348T>C None
M0187372 JPOGGLPM_00004 4176 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -359A>T None
M0187373 JPOGGLPM_00005 4248 3 Gut 1.00 protein_coding synonymous_variant LOW 42C>T Val14Val
M0187374 JPOGGLPM_00005 4371 3 Gut 1.00 protein_coding synonymous_variant LOW 165A>T Ala55Ala
M0187375 JPOGGLPM_00006 4592 3 Gut 1.00 protein_coding synonymous_variant LOW 144T>C Ser48Ser
M0187376 JPOGGLPM_00006 4679 3 Gut 1.00 protein_coding synonymous_variant LOW 231T>C Asp77Asp
M0187377 JPOGGLPM_00007 4864 3 Gut 1.00 protein_coding synonymous_variant LOW 99A>G Leu33Leu
M0187378 JPOGGLPM_00007 4978 3 Gut 1.00 protein_coding synonymous_variant LOW 213T>C Phe71Phe
M0187379 JPOGGLPM_00007 4984 3 Gut 1.00 protein_coding synonymous_variant LOW 219C>T Asp73Asp






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