Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3362
  Reference Plasmid   MGYG000298895__MGYG000298895_2
  Reference Plasmid Size   87065
  Reference Plasmid GC Content   0.40
  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
M0137023 NBIMGMMA_00001 640 6 Oral 0.67 protein_coding synonymous_variant LOW 2532A>T Ile844Ile
M0137024 NBIMGMMA_00001 655 6 Oral 0.67 protein_coding synonymous_variant LOW 2517T>C Pro839Pro
M0137025 NBIMGMMA_00001 670 3 Oral 0.33 protein_coding synonymous_variant LOW 2502C>A Val834Val
M0137026 NBIMGMMA_00001 691 6 Oral 0.67 protein_coding synonymous_variant LOW 2481A>G Lys827Lys
M0137027 NBIMGMMA_00001 721 5 Oral 0.56 protein_coding synonymous_variant LOW 2451T>G Ser817Ser
M0137028 NBIMGMMA_00001 976 7 Oral 0.78 protein_coding synonymous_variant LOW 2196T>C Gly732Gly
M0137029 NBIMGMMA_00001 1090 5 Oral 0.56 protein_coding synonymous_variant LOW 2082C>T Asp694Asp
M0137030 NBIMGMMA_00001 1342 4 Oral 0.44 protein_coding synonymous_variant LOW 1830G>A Lys610Lys
M0137031 NBIMGMMA_00001 1681 3 Oral 0.33 protein_coding synonymous_variant LOW 1491C>T Tyr497Tyr
M0137032 NBIMGMMA_00001 2206 6 Oral 0.67 protein_coding synonymous_variant LOW 966T>C Ala322Ala
M0137033 NBIMGMMA_00001 2278 7 Oral 0.78 protein_coding synonymous_variant LOW 894T>A Thr298Thr
M0137034 NBIMGMMA_00001 2446 5 Oral 0.56 protein_coding synonymous_variant LOW 726A>G Lys242Lys
M0137035 NBIMGMMA_00001 3218 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -47C>T None
M0137036 NBIMGMMA_00001 3332 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -161C>T None
M0137037 NBIMGMMA_00001 3362 4 Oral 0.44 protein_coding upstream_gene_variant MODIFIER -191A>G None
M0137038 NBIMGMMA_00001 3363 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -192A>T None
M0137039 NBIMGMMA_00001 3369 4 Oral 0.44 protein_coding upstream_gene_variant MODIFIER -198T>C None
M0137040 NBIMGMMA_00001 3386 5 Oral 0.56 protein_coding upstream_gene_variant MODIFIER -215T>C None
M0137041 NBIMGMMA_00001 3398 4 Oral 0.44 protein_coding upstream_gene_variant MODIFIER -227T>A None
M0137042 NBIMGMMA_00001 3419 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -248T>C None
M0137043 NBIMGMMA_00002 3467 3 Oral 0.33 protein_coding synonymous_variant LOW 2295C>T Tyr765Tyr
M0137044 NBIMGMMA_00002 3488 3 Oral 0.33 protein_coding synonymous_variant LOW 2274A>G Ser758Ser
M0137045 NBIMGMMA_00002 3515 3 Oral 0.33 protein_coding synonymous_variant LOW 2247C>T Ser749Ser
M0137046 NBIMGMMA_00002 3562 3 Oral 0.33 protein_coding missense_variant MODERATE 2200C>A His734Asn
M0137047 NBIMGMMA_00002 3743 3 Oral 0.33 protein_coding synonymous_variant LOW 2019T>C Thr673Thr
M0137048 NBIMGMMA_00002 3794 3 Oral 0.33 protein_coding synonymous_variant LOW 1968A>C Thr656Thr
M0137049 NBIMGMMA_00002 3947 3 Oral 0.33 protein_coding synonymous_variant LOW 1815A>C Gly605Gly
M0137050 NBIMGMMA_00002 4057 3 Oral 0.33 protein_coding missense_variant MODERATE 1705G>A Val569Ile
M0137051 NBIMGMMA_00002 4348 3 Oral 0.33 protein_coding missense_variant MODERATE 1414C>A Gln472Lys
M0137052 NBIMGMMA_00002 4673 3 Oral 0.33 protein_coding synonymous_variant LOW 1089A>G Val363Val
M0137053 NBIMGMMA_00002 4760 3 Oral 0.33 protein_coding synonymous_variant LOW 1002C>T Pro334Pro
M0137054 NBIMGMMA_00002 5702 3 Oral 0.33 protein_coding synonymous_variant LOW 60G>A Thr20Thr
M0137055 NBIMGMMA_00001 5813 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -2642A>G None
M0137056 NBIMGMMA_00001 5832 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -2661C>A None
M0137057 NBIMGMMA_00001 5866 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -2695A>G None
M0137058 NBIMGMMA_00001 5872 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -2701G>A None
M0137059 NBIMGMMA_00001 5890 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -2719T>C None
M0137060 NBIMGMMA_00001 267 3 Oral 0.33 protein_coding downstream_gene_variant MODIFIER *88G>A None
M0137061 NBIMGMMA_00001 300 3 Oral 0.33 protein_coding downstream_gene_variant MODIFIER *55T>C None
M0137062 NBIMGMMA_00001 307 3 Oral 0.33 protein_coding downstream_gene_variant MODIFIER *48G>A None
M0137063 NBIMGMMA_00001 505 3 Oral 0.33 protein_coding synonymous_variant LOW 2667C>A Thr889Thr
M0137064 NBIMGMMA_00001 1429 4 Oral 0.44 protein_coding synonymous_variant LOW 1743C>T Ser581Ser
M0137065 NBIMGMMA_00001 1456 3 Oral 0.33 protein_coding synonymous_variant LOW 1716C>T Thr572Thr
M0137066 NBIMGMMA_00001 1479 5 Oral 0.56 protein_coding synonymous_variant LOW 1693C>T Leu565Leu
M0137067 NBIMGMMA_00001 1573 4 Oral 0.44 protein_coding synonymous_variant LOW 1599T>C Ser533Ser
M0137068 NBIMGMMA_00001 1612 4 Oral 0.44 protein_coding synonymous_variant LOW 1560C>T Thr520Thr
M0137069 NBIMGMMA_00001 2116 3 Oral 0.33 protein_coding synonymous_variant LOW 1056C>T Ser352Ser
M0137070 NBIMGMMA_00001 2704 5 Oral 0.56 protein_coding synonymous_variant LOW 468A>G Glu156Glu
M0137071 NBIMGMMA_00001 2824 3 Oral 0.33 protein_coding synonymous_variant LOW 348T>C Ile116Ile
M0137072 NBIMGMMA_00001 2356 4 Oral 0.44 protein_coding synonymous_variant LOW 816C>T Asp272Asp






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
NBIMGMMA_00002 VEH14740.1|GH3 88.2 0 1 777 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