Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C870
  Reference Plasmid   NZ_CP072222.1
  Reference Plasmid Size   6108
  Reference Plasmid GC Content   0.41
  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
M0185416 LLHJKLFK_00003 5342 4 Gut 0.57 protein_coding upstream_gene_variant MODIFIER -4050A>G None
M0185417 LLHJKLFK_00003 5697 4 Gut 0.57 protein_coding upstream_gene_variant MODIFIER -4405C>T None
M0185418 LLHJKLFK_00001 93 3 Gut 0.43 protein_coding synonymous_variant LOW 93G>A Leu31Leu
M0185419 LLHJKLFK_00001 153 3 Gut 0.43 protein_coding synonymous_variant LOW 153A>T Leu51Leu
M0185420 LLHJKLFK_00001 180 3 Gut 0.43 protein_coding synonymous_variant LOW 180T>C Asp60Asp
M0185421 LLHJKLFK_00001 237 3 Gut 0.43 protein_coding synonymous_variant LOW 237C>T Tyr79Tyr
M0185422 LLHJKLFK_00001 255 3 Gut 0.43 protein_coding synonymous_variant LOW 255A>G Ala85Ala
M0185423 LLHJKLFK_00001 273 3 Gut 0.43 protein_coding synonymous_variant LOW 273T>C Asn91Asn
M0185424 LLHJKLFK_00001 294 3 Gut 0.43 protein_coding synonymous_variant LOW 294T>C Asp98Asp
M0185425 LLHJKLFK_00001 408 3 Gut 0.43 protein_coding synonymous_variant LOW 408A>T Ser136Ser
M0185426 LLHJKLFK_00001 474 3 Gut 0.43 protein_coding synonymous_variant LOW 474C>T Phe158Phe
M0185427 LLHJKLFK_00001 492 3 Gut 0.43 protein_coding synonymous_variant LOW 492T>C Gly164Gly
M0185428 LLHJKLFK_00001 501 3 Gut 0.43 protein_coding synonymous_variant LOW 501G>A Arg167Arg
M0185429 LLHJKLFK_00001 567 3 Gut 0.43 protein_coding synonymous_variant LOW 567T>C Asn189Asn
M0185430 LLHJKLFK_00001 594 3 Gut 0.43 protein_coding synonymous_variant LOW 594T>C Val198Val
M0185431 LLHJKLFK_00001 624 3 Gut 0.43 protein_coding synonymous_variant LOW 624C>T Ser208Ser
M0185432 LLHJKLFK_00001 681 3 Gut 0.43 protein_coding synonymous_variant LOW 681G>A Lys227Lys
M0185433 LLHJKLFK_00001 777 3 Gut 0.43 protein_coding synonymous_variant LOW 777C>T Leu259Leu
M0185434 LLHJKLFK_00001 780 3 Gut 0.43 protein_coding synonymous_variant LOW 780A>C Ile260Ile
M0185435 LLHJKLFK_00001 795 3 Gut 0.43 protein_coding synonymous_variant LOW 795A>G Lys265Lys
M0185436 LLHJKLFK_00001 843 3 Gut 0.43 protein_coding synonymous_variant LOW 843T>C Leu281Leu
M0185437 LLHJKLFK_00002 1005 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -7C>T None
M0185438 LLHJKLFK_00002 1077 3 Gut 0.43 protein_coding synonymous_variant LOW 66C>T Ala22Ala
M0185439 LLHJKLFK_00002 1106 4 Gut 0.57 protein_coding missense_variant MODERATE 95A>G Glu32Gly
M0185440 LLHJKLFK_00002 1136 4 Gut 0.57 protein_coding missense_variant MODERATE 125G>A Arg42Gln
M0185441 LLHJKLFK_00010 5503 3 Gut 0.43 protein_coding missense_variant MODERATE 143A>G Lys48Arg
M0185442 LLHJKLFK_00003 5743 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4451A>G None
M0185443 LLHJKLFK_00003 5751 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4459T>C None
M0185444 LLHJKLFK_00003 5767 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4475G>A None
M0185445 LLHJKLFK_00003 5819 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4527A>G 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







        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
LLHJKLFK_00005 ARO:3003097 80.3 2e-171 1 315 0.9937 0.9517 cephalosporin CfxA beta-lactamase antibiotic inactivation






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