Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C47
  Reference Plasmid   AP029229.1
  Reference Plasmid Size   9892
  Reference Plasmid GC Content   0.28
  Reference Plasmid Mobility Type   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
M0058561 HDEJBKDP_00007 3423 3 Skin 0.07 protein_coding synonymous_variant LOW 21G>A Ser7Ser
M0058562 HDEJBKDP_00007 3426 4 Skin 0.09 protein_coding synonymous_variant LOW 18C>T Ser6Ser
M0058563 HDEJBKDP_00007 3427 3 Skin 0.07 protein_coding missense_variant MODERATE 17G>A Ser6Asn
M0058564 HDEJBKDP_00002 3493 6 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -2904A>G None
M0058565 HDEJBKDP_00002 3523 5 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -2934A>G None
M0058566 HDEJBKDP_00002 3549 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -2960A>C None
M0058567 HDEJBKDP_00002 3551 5 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -2962C>T None
M0058568 HDEJBKDP_00002 3573 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -2984A>C None
M0058569 HDEJBKDP_00002 3577 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -2988T>A None
M0058570 HDEJBKDP_00002 3623 6 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -3034A>C None
M0058571 HDEJBKDP_00008 4233 3 Skin 0.07 protein_coding synonymous_variant LOW 408C>T Gly136Gly
M0058572 HDEJBKDP_00008 4243 3 Skin 0.07 protein_coding missense_variant MODERATE 418A>G Ile140Val
M0058573 HDEJBKDP_00003 5655 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -4623A>T None
M0058574 HDEJBKDP_00003 5687 5 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -4655G>A None
M0058575 HDEJBKDP_00009 6251 3 Skin 0.07 protein_coding synonymous_variant LOW 471T>A Ile157Ile
M0058576 HDEJBKDP_00009 6264 3 Skin 0.07 protein_coding missense_variant MODERATE 484T>G Ser162Ala
M0058577 HDEJBKDP_00010 6944 3 Skin 0.07 protein_coding synonymous_variant LOW 354C>T Asn118Asn
M0058578 HDEJBKDP_00012 8159 3 Skin 0.07 protein_coding missense_variant MODERATE 134G>T Arg45Ile
M0058579 HDEJBKDP_00012 8286 4 Skin 0.09 protein_coding missense_variant MODERATE 7A>T Arg3Trp
M0058580 HDEJBKDP_00007 8320 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -4877G>A None
M0058581 HDEJBKDP_00007 8344 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -4901G>A None
M0058582 HDEJBKDP_00013 8582 3 Skin 0.07 protein_coding missense_variant MODERATE 29C>T Ala10Val
M0058583 HDEJBKDP_00014 8687 8 Skin 0.18 protein_coding synonymous_variant LOW 96T>C His32His
M0058584 HDEJBKDP_00014 8692 3 Skin 0.07 protein_coding missense_variant MODERATE 91G>A Glu31Lys
M0058585 HDEJBKDP_00001 183 4 Skin 0.09 protein_coding synonymous_variant LOW 183T>C Val61Val
M0058586 HDEJBKDP_00002 1423 8 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -834T>C None
M0058587 HDEJBKDP_00005 2221 3 Skin 0.07 protein_coding missense_variant MODERATE 196G>A Ala66Thr
M0058588 HDEJBKDP_00007 7348 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -3905C>T None
M0058589 HDEJBKDP_00002 3629 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -3040T>G None
M0058590 HDEJBKDP_00003 5713 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -4681C>T None
M0058591 HDEJBKDP_00003 5727 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -4695T>C None
M0058592 HDEJBKDP_00003 772 4 Skin 0.09 protein_coding synonymous_variant LOW 261T>C Asn87Asn
M0058593 HDEJBKDP_00003 855 5 Skin 0.11 protein_coding missense_variant MODERATE 178A>G Ile60Val
M0058594 HDEJBKDP_00010 8871 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -1574G>T None
M0058595 HDEJBKDP_00010 8882 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -1585A>G None
M0058596 HDEJBKDP_00015 8889 4 Skin 0.09 protein_coding missense_variant MODERATE 4A>C Lys2Gln
M0058597 HDEJBKDP_00015 8900 4 Skin 0.09 protein_coding synonymous_variant LOW 15T>C Tyr5Tyr
M0058598 HDEJBKDP_00015 8908 4 Skin 0.09 protein_coding missense_variant MODERATE 23C>T Thr8Ile
M0058599 HDEJBKDP_00015 8915 4 Skin 0.09 protein_coding synonymous_variant LOW 30C>T Ile10Ile
M0058600 HDEJBKDP_00015 8918 4 Skin 0.09 protein_coding synonymous_variant LOW 33C>T Ile11Ile
M0058601 HDEJBKDP_00015 8936 4 Skin 0.09 protein_coding synonymous_variant LOW 51C>T Ile17Ile
M0058602 HDEJBKDP_00015 8966 5 Skin 0.11 protein_coding synonymous_variant LOW 81C>T His27His
M0058603 HDEJBKDP_00015 9007 5 Skin 0.11 protein_coding missense_variant MODERATE 122A>G Lys41Arg
M0058604 HDEJBKDP_00015 9146 5 Skin 0.11 protein_coding synonymous_variant LOW 261T>C Tyr87Tyr
M0058605 HDEJBKDP_00015 9159 6 Skin 0.13 protein_coding missense_variant MODERATE 274G>A Asp92Asn
M0058606 HDEJBKDP_00010 9409 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -2112A>T None
M0058607 HDEJBKDP_00005 467 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -1559G>A None
M0058608 HDEJBKDP_00002 476 4 Skin 0.09 protein_coding synonymous_variant LOW 114G>A Lys38Lys
M0058609 HDEJBKDP_00003 709 4 Skin 0.09 protein_coding synonymous_variant LOW 324C>T Asp108Asp
M0058610 HDEJBKDP_00003 1000 3 Skin 0.07 protein_coding synonymous_variant LOW 33T>C Ile11Ile
M0058611 HDEJBKDP_00015 9092 3 Skin 0.07 protein_coding synonymous_variant LOW 207A>G Gly69Gly
M0058612 HDEJBKDP_00015 9177 4 Skin 0.09 protein_coding missense_variant MODERATE 292A>C Asn98His
M0058613 HDEJBKDP_00010 9708 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -2411G>A None
M0058614 HDEJBKDP_00010 9766 4 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -2469G>C None
M0058615 HDEJBKDP_00010 9767 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -2470G>C None
M0058616 HDEJBKDP_00010 9816 3 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -2519A>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