Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C602
  Reference Plasmid   NZ_CP035848.1
  Reference Plasmid Size   63103
  Reference Plasmid GC Content   0.51
  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
M0169239 JGGPPOFG_00066 58152 3 Gut 0.23 protein_coding synonymous_variant LOW 954T>C Ile318Ile
M0169240 JGGPPOFG_00066 59082 3 Gut 0.23 protein_coding synonymous_variant LOW 1884T>C Ser628Ser
M0169241 JGGPPOFG_00037 27865 4 Gut 0.31 protein_coding synonymous_variant LOW 114A>G Val38Val
M0169242 JGGPPOFG_00037 28024 5 Gut 0.38 protein_coding synonymous_variant LOW 273G>A Lys91Lys
M0169243 JGGPPOFG_00038 28290 4 Gut 0.31 protein_coding synonymous_variant LOW 16T>C Leu6Leu
M0169244 JGGPPOFG_00038 28538 5 Gut 0.38 protein_coding missense_variant MODERATE 264G>T Glu88Asp
M0169245 JGGPPOFG_00039 29496 3 Gut 0.23 protein_coding missense_variant MODERATE 288T>A Asn96Lys
M0169246 JGGPPOFG_00005 3476 3 Gut 0.23 protein_coding synonymous_variant LOW 228T>C Ala76Ala
M0169247 JGGPPOFG_00005 3686 3 Gut 0.23 protein_coding synonymous_variant LOW 18G>A Leu6Leu
M0169248 JGGPPOFG_00067 59449 4 Gut 0.31 protein_coding synonymous_variant LOW 156A>G Glu52Glu
M0169249 JGGPPOFG_00067 59452 4 Gut 0.31 protein_coding synonymous_variant LOW 159T>G Gly53Gly
M0169250 JGGPPOFG_00067 59455 4 Gut 0.31 protein_coding synonymous_variant LOW 162G>A Gln54Gln
M0169251 JGGPPOFG_00067 59458 4 Gut 0.31 protein_coding synonymous_variant LOW 165T>C Leu55Leu
M0169252 JGGPPOFG_00067 59461 4 Gut 0.31 protein_coding synonymous_variant LOW 168C>T Arg56Arg
M0169253 JGGPPOFG_00067 59476 4 Gut 0.31 protein_coding synonymous_variant LOW 183G>A Glu61Glu
M0169254 JGGPPOFG_00067 59503 4 Gut 0.31 protein_coding synonymous_variant LOW 210C>T Thr70Thr
M0169255 JGGPPOFG_00068 59743 4 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -47T>A None
M0169256 JGGPPOFG_00068 59784 4 Gut 0.31 protein_coding upstream_gene_variant MODIFIER -6C>A None
M0169257 JGGPPOFG_00069 61204 4 Gut 0.31 protein_coding missense_variant MODERATE 1123T>C Ser375Pro
M0169258 JGGPPOFG_00068 59738 3 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -52C>A None
M0169259 JGGPPOFG_00068 59739 3 Gut 0.23 protein_coding upstream_gene_variant MODIFIER -51T>A None
M0169260 JGGPPOFG_00069 60980 3 Gut 0.23 protein_coding missense_variant MODERATE 899G>A Gly300Glu
M0169261 JGGPPOFG_00069 61077 3 Gut 0.23 protein_coding synonymous_variant LOW 996G>A Ala332Ala
M0169262 JGGPPOFG_00069 61089 3 Gut 0.23 protein_coding synonymous_variant LOW 1008T>C Arg336Arg
M0169263 JGGPPOFG_00036 26598 4 Gut 0.31 protein_coding missense_variant MODERATE 1669T>A Ser557Thr
M0169264 JGGPPOFG_00038 28853 4 Gut 0.31 protein_coding synonymous_variant LOW 579A>C Ser193Ser
M0169265 JGGPPOFG_00038 28880 4 Gut 0.31 protein_coding synonymous_variant LOW 606G>A Glu202Glu
M0169266 JGGPPOFG_00038 28883 4 Gut 0.31 protein_coding synonymous_variant LOW 609A>G Thr203Thr
M0169267 JGGPPOFG_00036 26471 3 Gut 0.23 protein_coding synonymous_variant LOW 1542G>T Arg514Arg
M0169268 JGGPPOFG_00036 26678 3 Gut 0.23 protein_coding synonymous_variant LOW 1749T>C Asp583Asp
M0169269 JGGPPOFG_00037 27934 3 Gut 0.23 protein_coding synonymous_variant LOW 183C>T Ala61Ala
M0169270 JGGPPOFG_00038 28292 3 Gut 0.23 protein_coding synonymous_variant LOW 18A>G Leu6Leu
M0169271 JGGPPOFG_00038 28410 3 Gut 0.23 protein_coding missense_variant MODERATE 136G>A Glu46Lys
M0169272 JGGPPOFG_00038 28472 3 Gut 0.23 protein_coding synonymous_variant LOW 198T>C Ser66Ser
M0169273 JGGPPOFG_00038 28535 3 Gut 0.23 protein_coding synonymous_variant LOW 261G>A Pro87Pro






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
JGGPPOFG_00060 ARO:3000166 99.3 3.06e-283 1 401 1.0000 1.0000 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
JGGPPOFG_00061 ARO:3003479 100 1.46e-152 1 207 1.0000 0.9952 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic target alteration






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
JGGPPOFG_00005 AKA93601.1|GH23 100 1e-123 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
JGGPPOFG_00060 2.A.1.2.68 99.8 6.4e-221 1 401 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)