Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C542
  Reference Plasmid   NZ_CP028348.1
  Reference Plasmid Size   1161559
  Reference Plasmid GC Content   0.63
  Reference Plasmid Mobility Type   conjugative





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
M0093472 GCMCPOGG_00247 251805 26 Skin 0.70 protein_coding upstream_gene_variant MODIFIER -3269C>T None
M0093473 GCMCPOGG_00250 252379 29 Skin 0.78 protein_coding synonymous_variant LOW 528C>T Val176Val
M0093474 GCMCPOGG_00250 252561 28 Skin 0.76 protein_coding missense_variant MODERATE 710A>G Lys237Arg
M0093475 GCMCPOGG_00250 252614 29 Skin 0.78 protein_coding missense_variant MODERATE 763G>A Ala255Thr
M0093476 GCMCPOGG_00250 252968 29 Skin 0.78 protein_coding synonymous_variant LOW 1117A>C Arg373Arg
M0093477 GCMCPOGG_00251 253485 25 Skin 0.68 protein_coding synonymous_variant LOW 516A>G Leu172Leu
M0093478 GCMCPOGG_00251 253083 3 Skin 0.08 protein_coding synonymous_variant LOW 114T>C Arg38Arg
M0093479 GCMCPOGG_00946 979944 5 Skin 0.14 protein_coding missense_variant MODERATE 569T>A Met190Lys
M0093480 GCMCPOGG_00946 980229 3 Skin 0.08 protein_coding missense_variant MODERATE 284C>T Ala95Val






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
GCMCPOGG_00079 AXU20827.1|GT1 100 2.44e-109 1 153 1 0.9503
GCMCPOGG_00086 AXU20830.1|GT4 100 0 1 730 1 1
GCMCPOGG_00097 AXU20833.1|GT4 100 3.98e-275 1 382 1 1
GCMCPOGG_00101 AXU20834.1|GH148 100 0 70 729 0.9053 1
GCMCPOGG_00280 AXU21575.1|PL1_2 100 0 1 446 1 1
GCMCPOGG_00287 AXU20969.1|CE8 100 2.87e-266 1 369 1 1
GCMCPOGG_00309 AXU20984.1|GT20 100 0 1 460 1 1
GCMCPOGG_00310 AXU20985.1|GH15 100 0 1 594 1 1
GCMCPOGG_00528 AXU21146.1|CBM57|GH2 100 0 1 894 1 1
GCMCPOGG_00532 QOV96075.1|GH79 95.4 0 1 459 1 0.9071
GCMCPOGG_00537 AXU21153.1|GH2 100 0 18 637 0.9733 1
GCMCPOGG_00540 QOV95645.1|GH31 94.5 0 1 600 0.8798 0.7386
GCMCPOGG_00580 AXU21616.1|GH67 100 0 12 699 0.9843 1
GCMCPOGG_00585 AXU21182.1|CE20 100 0 2 634 0.9984 1
GCMCPOGG_00592 AXU21185.1|CBM51|GH27 100 0 14 601 0.9784 1
GCMCPOGG_00603 AXU21191.1|GH95 100 0 1 769 1 1
GCMCPOGG_00606 AXU21194.1|CBM13|GH43_7 100 0 1 482 1 1
GCMCPOGG_00610 AXU21618.1|GH43_1 100 6.41e-282 2 371 0.9973 1
GCMCPOGG_00621 AXU21203.1|GH10 100 1.33e-269 7 377 0.9841 1
GCMCPOGG_00768 AXU21302.1|CBM67|GH78 100 0 1 832 1 1
GCMCPOGG_00770 AXU21304.1|GH3 100 0 1 739 1 1
GCMCPOGG_00987 AXU21453.1|GH68 99.8 1.42e-297 14 414 0.9686 1
GCMCPOGG_01082 AXU21523.1|GH23 100 1.17e-175 1 256 1 0.9846





        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