Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C260
  Reference Plasmid   LR962555.1
  Reference Plasmid Size   73470
  Reference Plasmid GC Content   0.35
  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
M0150032 CMGBCFDK_00053 55281 3 Gut 1.00 protein_coding missense_variant MODERATE 409C>A Pro137Thr
M0150033 CMGBCFDK_00053 55308 3 Gut 1.00 protein_coding missense_variant MODERATE 436C>T Pro146Ser
M0150034 CMGBCFDK_00054 55959 3 Gut 1.00 protein_coding synonymous_variant LOW 201C>T His67His
M0150035 CMGBCFDK_00054 56391 3 Gut 1.00 protein_coding synonymous_variant LOW 633C>T Tyr211Tyr
M0150036 CMGBCFDK_00054 56394 3 Gut 1.00 protein_coding synonymous_variant LOW 636C>T Asn212Asn
M0150037 CMGBCFDK_00054 56406 3 Gut 1.00 protein_coding synonymous_variant LOW 648A>G Lys216Lys
M0150038 CMGBCFDK_00054 56454 3 Gut 1.00 protein_coding synonymous_variant LOW 696A>G Ala232Ala
M0150039 CMGBCFDK_00054 56480 3 Gut 1.00 protein_coding missense_variant MODERATE 722C>T Pro241Leu
M0150040 CMGBCFDK_00054 56499 3 Gut 1.00 protein_coding synonymous_variant LOW 741G>C Ser247Ser
M0150041 CMGBCFDK_00054 56519 3 Gut 1.00 protein_coding missense_variant MODERATE 761C>A Ser254Tyr
M0150042 CMGBCFDK_00054 56610 3 Gut 1.00 protein_coding synonymous_variant LOW 852T>G Ala284Ala
M0150043 CMGBCFDK_00055 57491 3 Gut 1.00 protein_coding synonymous_variant LOW 459A>G Lys153Lys
M0150044 CMGBCFDK_00055 57507 3 Gut 1.00 protein_coding missense_variant MODERATE 475C>A Gln159Lys
M0150045 CMGBCFDK_00055 57558 3 Gut 1.00 protein_coding missense_variant MODERATE 526G>A Ala176Thr
M0150046 CMGBCFDK_00056 57669 3 Gut 1.00 protein_coding upstream_gene_variant MODIFIER -13G>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
CMGBCFDK_00048 VFG002164 AS 97.3 0 1 1305 1.0 1 Adherence aggregation substance PrgB/Asc10 experiment
CMGBCFDK_00048 VFG002164 AS 97.3 0 1 1305 1.0 1 Adherence aggregation substance PrgB/Asc10 prediction







        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
CMGBCFDK_00068 PHI:2999 EF0026 98.1 4.3e-91 1 162 1.0000 1.0000 moths nosocomial infection None increased virulence (hypervirulence)






        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
CMGBCFDK_00012 QGI54330.1|GH24 99.8 0 1 588 1 1
CMGBCFDK_00022 QDJ05477.1|GH25 96.6 3.86e-189 1 264 0.9962 0.9962
CMGBCFDK_00054 AAG40447.1|GH73 100 9.37999999998728e-313 1 423 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