Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C651
  Reference Plasmid   NZ_CP041397.1
  Reference Plasmid Size   38629
  Reference Plasmid GC Content   0.33
  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
M0170299 JJPMNLKL_00044 29250 10 Gut 0.14 protein_coding synonymous_variant LOW 1218C>T Tyr406Tyr
M0170300 JJPMNLKL_00044 29343 10 Gut 0.14 protein_coding synonymous_variant LOW 1311T>C Asn437Asn
M0170301 JJPMNLKL_00054 37477 11 Gut 0.16 protein_coding missense_variant MODERATE 34A>G Ile12Val
M0170302 JJPMNLKL_00054 37510 6 Gut 0.09 protein_coding missense_variant MODERATE 67C>A His23Asn
M0170303 JJPMNLKL_00036 23603 14 Gut 0.20 protein_coding missense_variant MODERATE 167T>C Met56Thr
M0170304 JJPMNLKL_00023 16080 8 Gut 0.11 protein_coding missense_variant MODERATE 1104C>A Asn368Lys
M0170305 JJPMNLKL_00023 16662 6 Gut 0.09 protein_coding synonymous_variant LOW 522C>T Asp174Asp
M0170306 JJPMNLKL_00023 16887 4 Gut 0.06 protein_coding missense_variant MODERATE 297G>T Glu99Asp
M0170307 JJPMNLKL_00031 22040 8 Gut 0.11 protein_coding missense_variant MODERATE 311C>G Thr104Ser
M0170308 JJPMNLKL_00031 22063 8 Gut 0.11 protein_coding synonymous_variant LOW 288C>T Asp96Asp
M0170309 JJPMNLKL_00034 22869 8 Gut 0.11 protein_coding missense_variant MODERATE 328C>T His110Tyr
M0170310 JJPMNLKL_00034 22945 13 Gut 0.19 protein_coding synonymous_variant LOW 252A>G Pro84Pro
M0170311 JJPMNLKL_00040 26546 4 Gut 0.06 protein_coding synonymous_variant LOW 360A>G Val120Val
M0170312 JJPMNLKL_00021 17357 4 Gut 0.06 protein_coding upstream_gene_variant MODIFIER -2491T>A None
M0170313 JJPMNLKL_00021 17359 4 Gut 0.06 protein_coding upstream_gene_variant MODIFIER -2493C>T None
M0170314 JJPMNLKL_00021 17360 4 Gut 0.06 protein_coding upstream_gene_variant MODIFIER -2494G>A None
M0170315 JJPMNLKL_00018 11448 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -131A>T None
M0170316 JJPMNLKL_00018 11665 3 Gut 0.04 protein_coding synonymous_variant LOW 87T>C Val29Val
M0170317 JJPMNLKL_00025 14159 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4057T>C None
M0170318 JJPMNLKL_00025 14160 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4056T>A None
M0170319 JJPMNLKL_00025 14161 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4055T>A None
M0170320 JJPMNLKL_00025 14162 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4054T>A None
M0170321 JJPMNLKL_00025 14163 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4053G>A None
M0170322 JJPMNLKL_00023 16681 3 Gut 0.04 protein_coding missense_variant MODERATE 503C>A Ala168Asp
M0170323 JJPMNLKL_00021 17355 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -2489C>T None
M0170324 JJPMNLKL_00021 17463 4 Gut 0.06 protein_coding upstream_gene_variant MODIFIER -2597T>C None
M0170325 JJPMNLKL_00021 17899 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -3033A>G None
M0170326 JJPMNLKL_00021 18017 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -3151T>C None
M0170327 JJPMNLKL_00021 19077 3 Gut 0.04 protein_coding upstream_gene_variant MODIFIER -4211C>T None
M0170328 JJPMNLKL_00044 29091 3 Gut 0.04 protein_coding synonymous_variant LOW 1059T>C Ser353Ser






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
JJPMNLKL_00011 9.B.154.1.1 95.2 3.1e-84 1 167 1.0000 1.0000 9 Incompletely Characterized Transport Systems 9.B Putative transport proteins 9.B.154 The Putative Holin-2 (PH-2) Family