Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C63
  Reference Plasmid   CP024977.1
  Reference Plasmid Size   62669
  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
M0143302 HENCPLKL_00010 13239 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -3178A>C None
M0143303 HENCPLKL_00010 13329 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -3268A>C None
M0143304 HENCPLKL_00016 14199 5 Gut 0.83 protein_coding missense_variant MODERATE 329A>G Lys110Arg
M0143305 HENCPLKL_00016 14313 5 Gut 0.83 protein_coding missense_variant MODERATE 443A>G Lys148Arg
M0143306 HENCPLKL_00014 15339 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -2488G>A None
M0143307 HENCPLKL_00014 15653 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -2802C>A None
M0143308 HENCPLKL_00019 20441 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -3280G>T None
M0143309 HENCPLKL_00020 22239 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -4943C>G None
M0143310 HENCPLKL_00028 23097 5 Gut 0.83 protein_coding missense_variant MODERATE 137T>C Met46Thr
M0143311 HENCPLKL_00030 23984 5 Gut 0.83 protein_coding missense_variant MODERATE 319A>T Arg107Trp
M0143312 HENCPLKL_00031 24916 5 Gut 0.83 protein_coding synonymous_variant LOW 60A>G Leu20Leu
M0143313 HENCPLKL_00034 26517 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -126C>A None
M0143314 HENCPLKL_00036 29631 5 Gut 0.83 protein_coding missense_variant MODERATE 1705A>T Thr569Ser
M0143315 HENCPLKL_00037 30042 3 Gut 0.50 protein_coding synonymous_variant LOW 75T>G Gly25Gly
M0143316 HENCPLKL_00037 30390 3 Gut 0.50 protein_coding synonymous_variant LOW 423T>G Gly141Gly
M0143317 HENCPLKL_00041 31751 5 Gut 0.83 protein_coding synonymous_variant LOW 21T>C Ser7Ser
M0143318 HENCPLKL_00044 33712 5 Gut 0.83 protein_coding missense_variant MODERATE 190A>C Met64Leu
M0143319 HENCPLKL_00044 33813 5 Gut 0.83 protein_coding synonymous_variant LOW 291C>T Ser97Ser
M0143320 HENCPLKL_00054 39376 5 Gut 0.83 protein_coding missense_variant MODERATE 389G>A Gly130Glu
M0143321 HENCPLKL_00055 39907 5 Gut 0.83 protein_coding synonymous_variant LOW 450C>A Pro150Pro
M0143322 HENCPLKL_00056 42296 5 Gut 0.83 protein_coding synonymous_variant LOW 2229C>T Ala743Ala
M0143323 HENCPLKL_00056 42416 5 Gut 0.83 protein_coding synonymous_variant LOW 2349C>T Phe783Phe
M0143324 HENCPLKL_00059 44650 5 Gut 0.83 protein_coding missense_variant MODERATE 899T>C Ile300Thr
M0143325 HENCPLKL_00064 48460 4 Gut 0.67 protein_coding missense_variant MODERATE 227T>G Val76Gly
M0143326 HENCPLKL_00064 48780 5 Gut 0.83 protein_coding missense_variant MODERATE 547T>C Cys183Arg
M0143327 HENCPLKL_00065 49195 5 Gut 0.83 protein_coding synonymous_variant LOW 354T>C Asp118Asp
M0143328 HENCPLKL_00065 49699 5 Gut 0.83 protein_coding synonymous_variant LOW 858G>A Lys286Lys
M0143329 HENCPLKL_00067 53138 5 Gut 0.83 protein_coding synonymous_variant LOW 33C>T Ser11Ser
M0143330 HENCPLKL_00069 54815 5 Gut 0.83 protein_coding missense_variant MODERATE 97T>G Phe33Val
M0143331 HENCPLKL_00069 54950 5 Gut 0.83 protein_coding missense_variant MODERATE 232G>A Val78Ile
M0143332 HENCPLKL_00069 56630 5 Gut 0.83 protein_coding missense_variant MODERATE 1912T>G Ser638Ala
M0143333 HENCPLKL_00070 57920 5 Gut 0.83 protein_coding missense_variant MODERATE 953C>T Ala318Val
M0143334 HENCPLKL_00070 60472 5 Gut 0.83 protein_coding missense_variant MODERATE 3505A>G Thr1169Ala
M0143335 HENCPLKL_00071 61132 5 Gut 0.83 protein_coding missense_variant MODERATE 293G>C Arg98Pro
M0143336 HENCPLKL_00071 61133 5 Gut 0.83 protein_coding synonymous_variant LOW 294C>G Arg98Arg
M0143337 HENCPLKL_00005 3697 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -530A>G None
M0143338 HENCPLKL_00005 3737 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -490T>C None
M0143339 HENCPLKL_00005 4410 5 Gut 0.83 protein_coding missense_variant MODERATE 184G>A Ala62Thr
M0143340 HENCPLKL_00009 7325 5 Gut 0.83 protein_coding synonymous_variant LOW 999A>G Leu333Leu
M0143341 HENCPLKL_00008 11058 5 Gut 0.83 protein_coding upstream_gene_variant MODIFIER -4908A>G None
M0143342 HENCPLKL_00010 13088 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3027G>T None
M0143343 HENCPLKL_00010 13089 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3028A>T None
M0143344 HENCPLKL_00010 13090 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3029G>C None
M0143345 HENCPLKL_00010 13091 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3030T>C None
M0143346 HENCPLKL_00010 13098 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3037T>G None
M0143347 HENCPLKL_00010 13102 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3041C>A None
M0143348 HENCPLKL_00010 13107 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3046G>A None
M0143349 HENCPLKL_00010 13138 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3077A>C None
M0143350 HENCPLKL_00010 13157 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3096G>A None
M0143351 HENCPLKL_00010 13160 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3099C>T None
M0143352 HENCPLKL_00010 13171 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3110C>T None
M0143353 HENCPLKL_00010 13192 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3131A>G None
M0143354 HENCPLKL_00010 13200 4 Gut 0.67 protein_coding upstream_gene_variant MODIFIER -3139G>A None
M0143355 HENCPLKL_00065 49184 3 Gut 0.50 protein_coding missense_variant MODERATE 343T>G Tyr115Asp
M0143356 HENCPLKL_00009 8152 3 Gut 0.50 protein_coding missense_variant MODERATE 1826T>C Phe609Ser
M0143357 HENCPLKL_00056 41775 3 Gut 0.50 protein_coding synonymous_variant LOW 1708C>T Leu570Leu






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