Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3407
  Reference Plasmid   MGYG000304086__MGYG000304086_9
  Reference Plasmid Size   49635
  Reference Plasmid GC Content   0.35
  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
M0142368 OKNLCIBH_00008 10752 3 Vaginal 1.00 protein_coding synonymous_variant LOW 612A>G Lys204Lys
M0142369 OKNLCIBH_00008 10892 3 Vaginal 1.00 protein_coding missense_variant MODERATE 472A>G Ile158Val
M0142370 OKNLCIBH_00009 11385 3 Vaginal 1.00 protein_coding missense_variant MODERATE 1370A>C Glu457Ala
M0142371 OKNLCIBH_00009 11534 3 Vaginal 1.00 protein_coding synonymous_variant LOW 1221G>A Gly407Gly
M0142372 OKNLCIBH_00009 11834 3 Vaginal 1.00 protein_coding synonymous_variant LOW 921C>T Gly307Gly
M0142373 OKNLCIBH_00009 11951 3 Vaginal 1.00 protein_coding synonymous_variant LOW 804C>T Ala268Ala
M0142374 OKNLCIBH_00009 11957 3 Vaginal 1.00 protein_coding synonymous_variant LOW 798C>T Asp266Asp
M0142375 OKNLCIBH_00009 12440 3 Vaginal 1.00 protein_coding synonymous_variant LOW 315G>T Leu105Leu
M0142376 OKNLCIBH_00022 25549 3 Vaginal 1.00 protein_coding missense_variant MODERATE 22A>G Lys8Glu
M0142377 OKNLCIBH_00023 25847 3 Vaginal 1.00 protein_coding missense_variant MODERATE 167T>C Val56Ala
M0142378 OKNLCIBH_00023 25945 3 Vaginal 1.00 protein_coding missense_variant MODERATE 265A>G Ser89Gly
M0142379 OKNLCIBH_00023 26782 3 Vaginal 1.00 protein_coding missense_variant MODERATE 1102C>T His368Tyr
M0142380 OKNLCIBH_00026 30146 3 Vaginal 1.00 protein_coding missense_variant MODERATE 1022T>C Leu341Ser
M0142381 OKNLCIBH_00026 30169 3 Vaginal 1.00 protein_coding synonymous_variant LOW 999G>A Gln333Gln
M0142382 OKNLCIBH_00026 30217 3 Vaginal 1.00 protein_coding synonymous_variant LOW 951C>T Ala317Ala
M0142383 OKNLCIBH_00026 30475 3 Vaginal 1.00 protein_coding synonymous_variant LOW 693T>C Arg231Arg
M0142384 OKNLCIBH_00026 31128 3 Vaginal 1.00 protein_coding missense_variant MODERATE 40A>G Ser14Gly
M0142385 OKNLCIBH_00027 31291 3 Vaginal 1.00 protein_coding synonymous_variant LOW 444C>T Asp148Asp
M0142386 OKNLCIBH_00028 32007 3 Vaginal 1.00 protein_coding missense_variant MODERATE 86G>A Arg29Lys
M0142387 OKNLCIBH_00028 32061 3 Vaginal 1.00 protein_coding missense_variant MODERATE 140C>T Ala47Val
M0142388 OKNLCIBH_00034 35399 3 Vaginal 1.00 protein_coding synonymous_variant LOW 1131C>T Ile377Ile
M0142389 OKNLCIBH_00035 35576 3 Vaginal 1.00 protein_coding missense_variant MODERATE 155A>C Asn52Thr
M0142390 OKNLCIBH_00035 35602 3 Vaginal 1.00 protein_coding missense_variant MODERATE 181T>C Ser61Pro
M0142391 OKNLCIBH_00037 36184 3 Vaginal 1.00 protein_coding missense_variant MODERATE 159C>A Asn53Lys
M0142392 OKNLCIBH_00037 36424 3 Vaginal 1.00 protein_coding missense_variant MODERATE 399A>T Glu133Asp
M0142393 OKNLCIBH_00037 36671 3 Vaginal 1.00 protein_coding missense_variant MODERATE 646A>G Asn216Asp
M0142394 OKNLCIBH_00037 36691 3 Vaginal 1.00 protein_coding synonymous_variant LOW 666C>T Gly222Gly
M0142395 OKNLCIBH_00038 38256 3 Vaginal 1.00 protein_coding synonymous_variant LOW 585T>C Tyr195Tyr
M0142396 OKNLCIBH_00041 40749 3 Vaginal 1.00 protein_coding synonymous_variant LOW 405C>T Gly135Gly
M0142397 OKNLCIBH_00041 40783 3 Vaginal 1.00 protein_coding missense_variant MODERATE 439G>A Gly147Ser
M0142398 OKNLCIBH_00041 40974 3 Vaginal 1.00 protein_coding synonymous_variant LOW 630T>C Ser210Ser
M0142399 OKNLCIBH_00041 40992 3 Vaginal 1.00 protein_coding synonymous_variant LOW 648G>A Arg216Arg
M0142400 OKNLCIBH_00042 42228 3 Vaginal 1.00 protein_coding missense_variant MODERATE 482C>G Ala161Gly
M0142401 OKNLCIBH_00043 42902 3 Vaginal 1.00 protein_coding synonymous_variant LOW 162C>T His54His
M0142402 OKNLCIBH_00044 43705 3 Vaginal 1.00 protein_coding missense_variant MODERATE 475C>T Leu159Phe
M0142403 OKNLCIBH_00044 43883 3 Vaginal 1.00 protein_coding missense_variant MODERATE 653A>G Asn218Ser
M0142404 OKNLCIBH_00044 43941 3 Vaginal 1.00 protein_coding synonymous_variant LOW 711G>A Leu237Leu
M0142405 OKNLCIBH_00044 44177 3 Vaginal 1.00 protein_coding missense_variant MODERATE 947A>G Lys316Arg
M0142406 OKNLCIBH_00044 44367 3 Vaginal 1.00 protein_coding synonymous_variant LOW 1137T>C Gly379Gly
M0142407 OKNLCIBH_00045 44947 3 Vaginal 1.00 protein_coding synonymous_variant LOW 408A>G Gln136Gln
M0142408 OKNLCIBH_00042 45628 3 Vaginal 1.00 protein_coding upstream_gene_variant MODIFIER -2919C>A None
M0142409 OKNLCIBH_00042 45693 3 Vaginal 1.00 protein_coding upstream_gene_variant MODIFIER -2984A>T None
M0142410 OKNLCIBH_00046 45841 3 Vaginal 1.00 protein_coding missense_variant MODERATE 134C>A Pro45Gln
M0142411 OKNLCIBH_00046 46320 3 Vaginal 1.00 protein_coding missense_variant MODERATE 613T>C Cys205Arg
M0142412 OKNLCIBH_00046 46412 3 Vaginal 1.00 protein_coding synonymous_variant LOW 705G>A Glu235Glu
M0142413 OKNLCIBH_00047 48107 3 Vaginal 1.00 protein_coding synonymous_variant LOW 150C>A Ala50Ala
M0142414 OKNLCIBH_00047 48490 3 Vaginal 1.00 protein_coding missense_variant MODERATE 533A>G Gln178Arg






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
OKNLCIBH_00001 QTH67069.1|GH3 100 0 1 641 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