Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1680
  Reference Plasmid   1111525849486442_bin.45__k141_7479
  Reference Plasmid Size   23615
  Reference Plasmid GC Content   0.39
  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
M0010791 PHBKBOBD_00002 900 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -127T>C None
M0010792 PHBKBOBD_00002 909 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -118T>C None
M0010793 PHBKBOBD_00002 923 5 Skin 0.28 protein_coding upstream_gene_variant MODIFIER -104T>C None
M0010794 PHBKBOBD_00002 950 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -77A>T None
M0010795 PHBKBOBD_00002 958 5 Skin 0.28 protein_coding upstream_gene_variant MODIFIER -69T>C None
M0010796 PHBKBOBD_00002 1057 4 Skin 0.22 protein_coding missense_variant MODERATE 31G>T Val11Leu
M0010797 PHBKBOBD_00002 1065 4 Skin 0.22 protein_coding synonymous_variant LOW 39T>A Ile13Ile
M0010798 PHBKBOBD_00002 1067 4 Skin 0.22 protein_coding missense_variant MODERATE 41C>T Ser14Phe
M0010799 PHBKBOBD_00002 1098 3 Skin 0.17 protein_coding synonymous_variant LOW 72G>T Thr24Thr
M0010800 PHBKBOBD_00002 1227 5 Skin 0.28 protein_coding synonymous_variant LOW 201T>G Ser67Ser
M0010801 PHBKBOBD_00002 1272 5 Skin 0.28 protein_coding synonymous_variant LOW 246A>G Ser82Ser
M0010802 PHBKBOBD_00002 1303 5 Skin 0.28 protein_coding synonymous_variant LOW 277T>C Leu93Leu
M0010803 PHBKBOBD_00002 1435 5 Skin 0.28 protein_coding missense_variant MODERATE 409C>G Leu137Val
M0010804 PHBKBOBD_00002 1463 5 Skin 0.28 protein_coding missense_variant MODERATE 437T>A Met146Lys
M0010805 PHBKBOBD_00002 1506 5 Skin 0.28 protein_coding synonymous_variant LOW 480C>T Ile160Ile
M0010806 PHBKBOBD_00003 1590 3 Skin 0.17 protein_coding missense_variant MODERATE 17G>A Arg6Lys
M0010807 PHBKBOBD_00003 1705 3 Skin 0.17 protein_coding synonymous_variant LOW 132G>T Val44Val
M0010808 PHBKBOBD_00003 1759 3 Skin 0.17 protein_coding synonymous_variant LOW 186G>A Glu62Glu
M0010809 PHBKBOBD_00003 1791 5 Skin 0.28 protein_coding missense_variant MODERATE 218A>G Asn73Ser
M0010810 PHBKBOBD_00003 1792 5 Skin 0.28 protein_coding synonymous_variant LOW 219T>C Asn73Asn
M0010811 PHBKBOBD_00003 1804 5 Skin 0.28 protein_coding synonymous_variant LOW 231A>G Gln77Gln
M0010812 PHBKBOBD_00003 1899 6 Skin 0.33 protein_coding stop_lost&splice_region_variant HIGH 326A>C Ter109Serext*?
M0010813 PHBKBOBD_00004 2085 5 Skin 0.28 protein_coding upstream_gene_variant MODIFIER -14T>C None
M0010814 PHBKBOBD_00004 2086 5 Skin 0.28 protein_coding upstream_gene_variant MODIFIER -13A>G None
M0010815 PHBKBOBD_00004 2149 5 Skin 0.28 protein_coding synonymous_variant LOW 51A>C Thr17Thr
M0010816 PHBKBOBD_00004 2150 5 Skin 0.28 protein_coding synonymous_variant LOW 52C>T Leu18Leu
M0010817 PHBKBOBD_00004 2152 5 Skin 0.28 protein_coding synonymous_variant LOW 54A>G Leu18Leu
M0010818 PHBKBOBD_00004 2312 5 Skin 0.28 protein_coding missense_variant MODERATE 214C>G Gln72Glu
M0010819 PHBKBOBD_00002 558 4 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -469A>G None
M0010820 PHBKBOBD_00002 562 4 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -465T>A None
M0010821 PHBKBOBD_00002 577 4 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -450T>C None
M0010822 PHBKBOBD_00002 596 4 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -431G>C None
M0010823 PHBKBOBD_00002 833 4 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -194A>T None
M0010824 PHBKBOBD_00004 2404 4 Skin 0.22 protein_coding synonymous_variant LOW 306T>C Thr102Thr
M0010825 PHBKBOBD_00004 2416 4 Skin 0.22 protein_coding synonymous_variant LOW 318C>T Ala106Ala
M0010826 PHBKBOBD_00004 2422 4 Skin 0.22 protein_coding synonymous_variant LOW 324T>G Gly108Gly
M0010827 PHBKBOBD_00004 2428 4 Skin 0.22 protein_coding synonymous_variant LOW 330G>T Ala110Ala
M0010828 PHBKBOBD_00004 2441 4 Skin 0.22 protein_coding synonymous_variant LOW 343T>C Leu115Leu
M0010829 PHBKBOBD_00004 2442 4 Skin 0.22 protein_coding missense_variant MODERATE 344T>C Leu115Ser
M0010830 PHBKBOBD_00004 2461 4 Skin 0.22 protein_coding synonymous_variant LOW 363C>T Ile121Ile
M0010831 PHBKBOBD_00004 2632 3 Skin 0.17 protein_coding synonymous_variant LOW 534G>A Thr178Thr
M0010832 PHBKBOBD_00004 2651 3 Skin 0.17 protein_coding missense_variant MODERATE 553A>G Ser185Gly
M0010833 PHBKBOBD_00004 2653 3 Skin 0.17 protein_coding synonymous_variant LOW 555T>C Ser185Ser
M0010834 PHBKBOBD_00004 2885 3 Skin 0.17 protein_coding missense_variant MODERATE 787A>C Ile263Leu
M0010835 PHBKBOBD_00004 2983 3 Skin 0.17 protein_coding synonymous_variant LOW 885G>A Pro295Pro
M0010836 PHBKBOBD_00004 3241 3 Skin 0.17 protein_coding synonymous_variant LOW 1143A>G Pro381Pro
M0010837 PHBKBOBD_00005 3449 3 Skin 0.17 protein_coding synonymous_variant LOW 24G>T Thr8Thr
M0010838 PHBKBOBD_00005 3542 3 Skin 0.17 protein_coding missense_variant MODERATE 117G>T Glu39Asp
M0010839 PHBKBOBD_00005 3587 3 Skin 0.17 protein_coding synonymous_variant LOW 162A>G Ala54Ala
M0010840 PHBKBOBD_00005 3599 3 Skin 0.17 protein_coding missense_variant MODERATE 174A>T Arg58Ser
M0010841 PHBKBOBD_00005 3621 3 Skin 0.17 protein_coding missense_variant MODERATE 196C>G Leu66Val
M0010842 PHBKBOBD_00005 3635 3 Skin 0.17 protein_coding synonymous_variant LOW 210G>A Ser70Ser
M0010843 PHBKBOBD_00005 3662 3 Skin 0.17 protein_coding synonymous_variant LOW 237A>C Gly79Gly
M0010844 PHBKBOBD_00005 3725 3 Skin 0.17 protein_coding synonymous_variant LOW 300T>C Gly100Gly
M0010845 PHBKBOBD_00005 3737 3 Skin 0.17 protein_coding synonymous_variant LOW 312C>T Thr104Thr
M0010846 PHBKBOBD_00005 3793 3 Skin 0.17 protein_coding missense_variant MODERATE 368A>G His123Arg
M0010847 PHBKBOBD_00005 3799 3 Skin 0.17 protein_coding missense_variant MODERATE 374G>A Arg125Lys
M0010848 PHBKBOBD_00005 3818 3 Skin 0.17 protein_coding synonymous_variant LOW 393A>T Ala131Ala
M0010849 PHBKBOBD_00005 3819 3 Skin 0.17 protein_coding missense_variant MODERATE 394A>G Asn132Asp
M0010850 PHBKBOBD_00005 3827 3 Skin 0.17 protein_coding synonymous_variant LOW 402T>G Ala134Ala
M0010851 PHBKBOBD_00005 3828 3 Skin 0.17 protein_coding missense_variant MODERATE 403G>A Val135Ile
M0010852 PHBKBOBD_00005 3836 3 Skin 0.17 protein_coding synonymous_variant LOW 411G>A Ala137Ala
M0010853 PHBKBOBD_00005 3851 3 Skin 0.17 protein_coding synonymous_variant LOW 426T>C Asn142Asn
M0010854 PHBKBOBD_00012 8330 3 Skin 0.17 protein_coding missense_variant MODERATE 259A>G Thr87Ala
M0010855 PHBKBOBD_00013 9967 3 Skin 0.17 protein_coding missense_variant MODERATE 132G>T Glu44Asp
M0010856 PHBKBOBD_00002 513 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -514T>C None
M0010857 PHBKBOBD_00004 2440 3 Skin 0.17 protein_coding synonymous_variant LOW 342T>C Val114Val






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
PHBKBOBD_00003 PHI:10392 pcoA (ABUW_3228) 75.5 1.3e-40 15 108 0.8704 0.8742 moths nosocomial infection copper resistance protein A reduced virulence






        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