Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3331
  Reference Plasmid   MGYG000298572__MGYG000298572_77
  Reference Plasmid Size   4597
  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
M0135525 HOEJNEKI_00001 1028 3 Oral 0.75 protein_coding missense_variant MODERATE 1734T>G Asp578Glu
M0135526 HOEJNEKI_00001 1115 3 Oral 0.75 protein_coding synonymous_variant LOW 1647T>C Ser549Ser
M0135527 HOEJNEKI_00001 1136 3 Oral 0.75 protein_coding synonymous_variant LOW 1626G>A Thr542Thr
M0135528 HOEJNEKI_00001 1138 3 Oral 0.75 protein_coding missense_variant MODERATE 1624A>G Thr542Ala
M0135529 HOEJNEKI_00001 1148 3 Oral 0.75 protein_coding synonymous_variant LOW 1614A>G Val538Val
M0135530 HOEJNEKI_00001 1502 3 Oral 0.75 protein_coding synonymous_variant LOW 1260T>C His420His
M0135531 HOEJNEKI_00001 1544 3 Oral 0.75 protein_coding synonymous_variant LOW 1218A>T Ala406Ala
M0135532 HOEJNEKI_00001 1580 3 Oral 0.75 protein_coding synonymous_variant LOW 1182T>C Asp394Asp
M0135533 HOEJNEKI_00001 1607 3 Oral 0.75 protein_coding synonymous_variant LOW 1155G>C Val385Val
M0135534 HOEJNEKI_00001 1610 3 Oral 0.75 protein_coding synonymous_variant LOW 1152G>A Ala384Ala
M0135535 HOEJNEKI_00001 1679 3 Oral 0.75 protein_coding missense_variant MODERATE 1083A>G Ile361Met
M0135536 HOEJNEKI_00001 1751 3 Oral 0.75 protein_coding synonymous_variant LOW 1011C>T Asn337Asn
M0135537 HOEJNEKI_00001 1816 3 Oral 0.75 protein_coding missense_variant MODERATE 946A>G Thr316Ala
M0135538 HOEJNEKI_00001 1838 3 Oral 0.75 protein_coding synonymous_variant LOW 924T>C Leu308Leu
M0135539 HOEJNEKI_00001 2018 4 Oral 1.00 protein_coding synonymous_variant LOW 744C>T Arg248Arg
M0135540 HOEJNEKI_00001 2255 3 Oral 0.75 protein_coding synonymous_variant LOW 507C>T Asp169Asp
M0135541 HOEJNEKI_00001 2408 3 Oral 0.75 protein_coding synonymous_variant LOW 354C>T Asn118Asn
M0135542 HOEJNEKI_00001 2513 3 Oral 0.75 protein_coding synonymous_variant LOW 249C>T Val83Val
M0135543 HOEJNEKI_00001 2618 4 Oral 1.00 protein_coding synonymous_variant LOW 144A>G Val48Val
M0135544 HOEJNEKI_00001 2713 3 Oral 0.75 protein_coding synonymous_variant LOW 49T>C Leu17Leu
M0135545 HOEJNEKI_00001 2794 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -33T>C None
M0135546 HOEJNEKI_00001 2806 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -45T>C None
M0135547 HOEJNEKI_00001 2828 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -67T>C None
M0135548 HOEJNEKI_00001 2831 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -70C>T None
M0135549 HOEJNEKI_00001 2870 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -109T>C None
M0135550 HOEJNEKI_00001 2880 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -119T>C None
M0135551 HOEJNEKI_00001 2909 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -148T>A None
M0135552 HOEJNEKI_00001 2945 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -184A>G None
M0135553 HOEJNEKI_00001 3006 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -245T>C None
M0135554 HOEJNEKI_00001 3008 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -247A>G None
M0135555 HOEJNEKI_00001 3019 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -258A>G None
M0135556 HOEJNEKI_00002 3265 3 Oral 0.75 protein_coding missense_variant MODERATE 142G>A Ala48Thr
M0135557 HOEJNEKI_00002 3308 4 Oral 1.00 protein_coding synonymous_variant LOW 99A>G Pro33Pro
M0135558 HOEJNEKI_00001 3465 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -704A>G None
M0135559 HOEJNEKI_00001 3490 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -729C>G None
M0135560 HOEJNEKI_00001 3491 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -730A>G None
M0135561 HOEJNEKI_00003 3523 4 Oral 1.00 protein_coding synonymous_variant LOW 669A>G Thr223Thr
M0135562 HOEJNEKI_00003 3739 4 Oral 1.00 protein_coding synonymous_variant LOW 453T>C Leu151Leu
M0135563 HOEJNEKI_00001 4258 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -1497G>A None
M0135564 HOEJNEKI_00001 4276 4 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -1515A>G None
M0135565 HOEJNEKI_00001 2804 3 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -43C>T None
M0135566 HOEJNEKI_00002 3068 3 Oral 0.75 protein_coding synonymous_variant LOW 339C>T Tyr113Tyr
M0135567 HOEJNEKI_00002 3077 3 Oral 0.75 protein_coding synonymous_variant LOW 330T>C Ile110Ile






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