Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1427
  Reference Plasmid   NZ_OY725741.1
  Reference Plasmid Size   285641
  Reference Plasmid GC Content   0.38
  Reference Plasmid Mobility Type   non-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
M0210261 PJCKNCEC_00249 277041 5 Gut 0.56 protein_coding synonymous_variant LOW 144T>C Thr48Thr
M0210262 PJCKNCEC_00249 277060 5 Gut 0.56 protein_coding synonymous_variant LOW 163C>T Leu55Leu
M0210263 PJCKNCEC_00249 277359 5 Gut 0.56 protein_coding synonymous_variant LOW 462C>T Cys154Cys
M0210264 PJCKNCEC_00249 277416 5 Gut 0.56 protein_coding synonymous_variant LOW 519G>A Ser173Ser
M0210265 PJCKNCEC_00249 277606 5 Gut 0.56 protein_coding missense_variant MODERATE 709A>C Ile237Leu
M0210266 PJCKNCEC_00245 277729 5 Gut 0.56 protein_coding upstream_gene_variant MODIFIER -4537T>C None
M0210267 PJCKNCEC_00245 277758 5 Gut 0.56 protein_coding upstream_gene_variant MODIFIER -4566G>A None
M0210268 PJCKNCEC_00245 277782 5 Gut 0.56 protein_coding upstream_gene_variant MODIFIER -4590C>T None
M0210269 PJCKNCEC_00245 278047 4 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -4855G>A None
M0210270 PJCKNCEC_00245 278111 4 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -4919C>T None
M0210271 PJCKNCEC_00250 278200 4 Gut 0.44 protein_coding synonymous_variant LOW 5997A>G Lys1999Lys
M0210272 PJCKNCEC_00250 278557 4 Gut 0.44 protein_coding synonymous_variant LOW 5640T>C Arg1880Arg
M0210273 PJCKNCEC_00250 278692 4 Gut 0.44 protein_coding synonymous_variant LOW 5505A>G Thr1835Thr
M0210274 PJCKNCEC_00250 278803 4 Gut 0.44 protein_coding synonymous_variant LOW 5394G>A Gly1798Gly
M0210275 PJCKNCEC_00250 278850 4 Gut 0.44 protein_coding synonymous_variant LOW 5347C>T Leu1783Leu
M0210276 PJCKNCEC_00250 278905 4 Gut 0.44 protein_coding synonymous_variant LOW 5292A>T Val1764Val
M0210277 PJCKNCEC_00250 278989 4 Gut 0.44 protein_coding missense_variant MODERATE 5208A>C Glu1736Asp
M0210278 PJCKNCEC_00250 279006 4 Gut 0.44 protein_coding missense_variant MODERATE 5191G>T Ala1731Ser
M0210279 PJCKNCEC_00250 279083 4 Gut 0.44 protein_coding missense_variant MODERATE 5114C>A Pro1705His
M0210280 PJCKNCEC_00250 279179 4 Gut 0.44 protein_coding missense_variant MODERATE 5018A>T Lys1673Ile
M0210281 PJCKNCEC_00250 279437 4 Gut 0.44 protein_coding missense_variant MODERATE 4760C>A Ser1587Tyr
M0210282 PJCKNCEC_00250 279438 4 Gut 0.44 protein_coding missense_variant MODERATE 4759T>G Ser1587Ala
M0210283 PJCKNCEC_00250 280948 4 Gut 0.44 protein_coding synonymous_variant LOW 3249C>T Asp1083Asp






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
PJCKNCEC_00157 AUO20016.1|PL1_2 98.9 0 1 896 1 1
PJCKNCEC_00195 AUO19978.1|CE4 98.8 9.35999999999789e-312 1 421 1 1
PJCKNCEC_00196 AUO19977.1|GH3 73.2 0 1 2021 1 1
PJCKNCEC_00207 AUO19966.1|CE8 98.6 0 1 1152 1 1
PJCKNCEC_00240 AUO19859.1|GH5_4 99.3 0 1 1124 1 1
PJCKNCEC_00250 AUO19837.1|CE8|GH95 99.8 0 1 1999 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