Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2718
  Reference Plasmid   1111525849861727_bin.16__k141_127463
  Reference Plasmid Size   4053
  Reference Plasmid GC Content   0.38
  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
M0131641 IJJNALHP_00001 42 6 Oral 0.75 protein_coding upstream_gene_variant MODIFIER -680A>G None
M0131642 IJJNALHP_00001 105 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -617A>G None
M0131643 IJJNALHP_00001 123 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -599A>G None
M0131644 IJJNALHP_00001 146 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -576A>C None
M0131645 IJJNALHP_00001 151 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -571A>C None
M0131646 IJJNALHP_00001 153 7 Oral 0.88 protein_coding upstream_gene_variant MODIFIER -569G>A None
M0131647 IJJNALHP_00001 596 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -126A>T None
M0131648 IJJNALHP_00001 617 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -105A>G None
M0131649 IJJNALHP_00001 740 5 Oral 0.63 protein_coding missense_variant MODERATE 19G>C Val7Leu
M0131650 IJJNALHP_00001 776 5 Oral 0.63 protein_coding missense_variant MODERATE 55G>T Ala19Ser
M0131651 IJJNALHP_00001 793 5 Oral 0.63 protein_coding synonymous_variant LOW 72C>A Ala24Ala
M0131652 IJJNALHP_00001 937 4 Oral 0.50 protein_coding synonymous_variant LOW 216T>C Asp72Asp
M0131653 IJJNALHP_00001 949 4 Oral 0.50 protein_coding synonymous_variant LOW 228T>A Thr76Thr
M0131654 IJJNALHP_00001 1042 5 Oral 0.63 protein_coding synonymous_variant LOW 321A>C Val107Val
M0131655 IJJNALHP_00001 1162 4 Oral 0.50 protein_coding synonymous_variant LOW 441A>T Pro147Pro
M0131656 IJJNALHP_00001 1312 4 Oral 0.50 protein_coding synonymous_variant LOW 591C>T Tyr197Tyr
M0131657 IJJNALHP_00002 1516 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -44G>A None
M0131658 IJJNALHP_00002 1517 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -43T>A None
M0131659 IJJNALHP_00002 1518 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -42A>C None
M0131660 IJJNALHP_00002 1739 5 Oral 0.63 protein_coding synonymous_variant LOW 180G>A Ala60Ala
M0131661 IJJNALHP_00002 2126 4 Oral 0.50 protein_coding synonymous_variant LOW 567T>C Ile189Ile
M0131662 IJJNALHP_00002 2135 4 Oral 0.50 protein_coding synonymous_variant LOW 576A>C Gly192Gly
M0131663 IJJNALHP_00002 2177 3 Oral 0.38 protein_coding synonymous_variant LOW 618A>G Gln206Gln
M0131664 IJJNALHP_00002 2180 3 Oral 0.38 protein_coding synonymous_variant LOW 621C>A Ile207Ile
M0131665 IJJNALHP_00002 2183 3 Oral 0.38 protein_coding synonymous_variant LOW 624A>G Lys208Lys
M0131666 IJJNALHP_00002 2225 4 Oral 0.50 protein_coding synonymous_variant LOW 666G>A Lys222Lys
M0131667 IJJNALHP_00002 2267 3 Oral 0.38 protein_coding missense_variant MODERATE 708T>A Phe236Leu
M0131668 IJJNALHP_00002 2269 4 Oral 0.50 protein_coding missense_variant MODERATE 710T>G Val237Gly
M0131669 IJJNALHP_00002 2282 4 Oral 0.50 protein_coding synonymous_variant LOW 723A>G Lys241Lys
M0131670 IJJNALHP_00002 2288 4 Oral 0.50 protein_coding synonymous_variant LOW 729T>C Val243Val
M0131671 IJJNALHP_00002 2292 4 Oral 0.50 protein_coding missense_variant MODERATE 733A>G Thr245Ala
M0131672 IJJNALHP_00002 2357 4 Oral 0.50 protein_coding synonymous_variant LOW 798C>T Thr266Thr
M0131673 IJJNALHP_00003 3120 4 Oral 0.50 protein_coding synonymous_variant LOW 468C>A Thr156Thr
M0131674 IJJNALHP_00003 3213 4 Oral 0.50 protein_coding synonymous_variant LOW 561A>G Ala187Ala
M0131675 IJJNALHP_00001 3620 5 Oral 0.63 protein_coding downstream_gene_variant MODIFIER *2134A>C None
M0131676 IJJNALHP_00001 3687 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *2201C>T None
M0131677 IJJNALHP_00001 3849 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *2363T>C None
M0131678 IJJNALHP_00001 3882 5 Oral 0.63 protein_coding downstream_gene_variant MODIFIER *2396T>C None
M0131679 IJJNALHP_00001 3900 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *2414C>T None
M0131680 IJJNALHP_00001 3904 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *2418C>T None
M0131681 IJJNALHP_00001 3927 4 Oral 0.50 protein_coding downstream_gene_variant MODIFIER *2441C>T None
M0131682 IJJNALHP_00001 86 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -636C>A None
M0131683 IJJNALHP_00001 108 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -614A>G None
M0131684 IJJNALHP_00001 114 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -608G>A None
M0131685 IJJNALHP_00001 144 4 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -578G>A None
M0131686 IJJNALHP_00001 177 5 Oral 0.63 protein_coding upstream_gene_variant MODIFIER -545G>A None
M0131687 IJJNALHP_00001 297 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -425G>A None
M0131688 IJJNALHP_00001 653 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -69A>C None
M0131689 IJJNALHP_00001 1102 3 Oral 0.38 protein_coding synonymous_variant LOW 381T>C Ser127Ser
M0131690 IJJNALHP_00001 1159 3 Oral 0.38 protein_coding synonymous_variant LOW 438T>C Ile146Ile
M0131691 IJJNALHP_00001 1423 3 Oral 0.38 protein_coding synonymous_variant LOW 702T>A Ala234Ala
M0131692 IJJNALHP_00002 1508 3 Oral 0.38 protein_coding upstream_gene_variant MODIFIER -52C>T None
M0131693 IJJNALHP_00002 2339 3 Oral 0.38 protein_coding synonymous_variant LOW 780A>T Leu260Leu
M0131694 IJJNALHP_00003 3106 3 Oral 0.38 protein_coding missense_variant MODERATE 454G>T Ala152Ser
M0131695 IJJNALHP_00001 3522 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *2036C>T None
M0131696 IJJNALHP_00001 3903 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *2417C>T None
M0131697 IJJNALHP_00001 3940 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *2454C>G None
M0131698 IJJNALHP_00001 3941 3 Oral 0.38 protein_coding downstream_gene_variant MODIFIER *2455C>T 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






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