Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C299
  Reference Plasmid   NC_011140.1
  Reference Plasmid Size   34616
  Reference Plasmid GC Content   0.36
  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
M0151457 AIJOGMLN_00016 14072 8 Gut 0.89 protein_coding missense_variant MODERATE 1681C>A Gln561Lys
M0151458 AIJOGMLN_00016 14127 7 Gut 0.78 protein_coding synonymous_variant LOW 1626G>A Lys542Lys
M0151459 AIJOGMLN_00016 14147 7 Gut 0.78 protein_coding missense_variant MODERATE 1606G>A Glu536Lys
M0151460 AIJOGMLN_00016 14184 8 Gut 0.89 protein_coding synonymous_variant LOW 1569G>A Ala523Ala
M0151461 AIJOGMLN_00016 14220 8 Gut 0.89 protein_coding synonymous_variant LOW 1533G>A Lys511Lys
M0151462 AIJOGMLN_00016 14223 8 Gut 0.89 protein_coding synonymous_variant LOW 1530C>A Ile510Ile
M0151463 AIJOGMLN_00016 14274 8 Gut 0.89 protein_coding missense_variant MODERATE 1479A>T Leu493Phe
M0151464 AIJOGMLN_00016 14276 8 Gut 0.89 protein_coding synonymous_variant LOW 1477T>C Leu493Leu
M0151465 AIJOGMLN_00016 14332 8 Gut 0.89 protein_coding missense_variant MODERATE 1421G>A Gly474Asp
M0151466 AIJOGMLN_00016 14424 7 Gut 0.78 protein_coding synonymous_variant LOW 1329G>T Gly443Gly
M0151467 AIJOGMLN_00016 14433 7 Gut 0.78 protein_coding synonymous_variant LOW 1320G>A Lys440Lys
M0151468 AIJOGMLN_00016 14595 8 Gut 0.89 protein_coding synonymous_variant LOW 1158C>A Thr386Thr
M0151469 AIJOGMLN_00016 14730 8 Gut 0.89 protein_coding synonymous_variant LOW 1023A>G Lys341Lys
M0151470 AIJOGMLN_00016 14815 8 Gut 0.89 protein_coding missense_variant MODERATE 938T>C Met313Thr
M0151471 AIJOGMLN_00016 14988 7 Gut 0.78 protein_coding synonymous_variant LOW 765T>G Leu255Leu
M0151472 AIJOGMLN_00016 15010 7 Gut 0.78 protein_coding missense_variant MODERATE 743G>A Arg248His
M0151473 AIJOGMLN_00016 15039 7 Gut 0.78 protein_coding synonymous_variant LOW 714G>A Ser238Ser
M0151474 AIJOGMLN_00016 15159 7 Gut 0.78 protein_coding synonymous_variant LOW 594A>C Ser198Ser
M0151475 AIJOGMLN_00016 13749 5 Gut 0.56 protein_coding synonymous_variant LOW 2004A>C Leu668Leu
M0151476 AIJOGMLN_00016 13707 4 Gut 0.44 protein_coding synonymous_variant LOW 2046C>T Thr682Thr






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
AIJOGMLN_00003 ARO:3002919 100 7.79e-171 1 231 1.0000 1.0000 glycopeptide antibiotic glycopeptide resistance gene cluster antibiotic target alteration
AIJOGMLN_00004 ARO:3002931 100 8.08e-256 1 364 1.0000 0.9479 glycopeptide antibiotic vanS antibiotic target alteration
AIJOGMLN_00005 ARO:3002942 100 4.32e-234 1 322 1.0000 1.0000 glycopeptide antibiotic vanH antibiotic target alteration
AIJOGMLN_00006 ARO:3000010 100 1.24e-252 7 349 0.9828 1.0000 glycopeptide antibiotic glycopeptide resistance gene cluster antibiotic target alteration
AIJOGMLN_00007 ARO:3002949 100 2.99e-156 1 202 1.0000 1.0000 glycopeptide antibiotic vanX antibiotic target alteration
AIJOGMLN_00008 ARO:3002955 100 1.88e-223 1 303 1.0000 1.0000 glycopeptide antibiotic vanY antibiotic target alteration
AIJOGMLN_00009 ARO:3002962 100 5.6e-107 1 161 1.0000 1.0000 glycopeptide antibiotic vanZ 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





        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
AIJOGMLN_00022 3.A.7.14.1 95.3 7.2e-123 1 274 1.0000 1.4645 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family