Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1254
  Reference Plasmid   NZ_CP143944.1
  Reference Plasmid Size   9119
  Reference Plasmid GC Content   0.44
  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
M0202240 OPCMHGHH_00002 3882 18 Gut 0.86 protein_coding upstream_gene_variant MODIFIER -2484G>A None
M0202241 OPCMHGHH_00002 3894 11 Gut 0.52 protein_coding upstream_gene_variant MODIFIER -2496G>A None
M0202242 OPCMHGHH_00002 4036 4 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2638G>A None
M0202243 OPCMHGHH_00002 4086 19 Gut 0.90 protein_coding upstream_gene_variant MODIFIER -2688T>C None
M0202244 OPCMHGHH_00002 4174 19 Gut 0.90 protein_coding upstream_gene_variant MODIFIER -2776G>A None
M0202245 OPCMHGHH_00009 4836 20 Gut 0.95 protein_coding missense_variant MODERATE 194T>C Ile65Thr
M0202246 OPCMHGHH_00009 5021 20 Gut 0.95 protein_coding missense_variant MODERATE 379A>G Asn127Asp
M0202247 OPCMHGHH_00009 5622 19 Gut 0.90 protein_coding missense_variant MODERATE 980G>A Gly327Glu
M0202248 OPCMHGHH_00002 5685 20 Gut 0.95 protein_coding upstream_gene_variant MODIFIER -4287C>T None
M0202249 OPCMHGHH_00007 3615 5 Gut 0.24 protein_coding synonymous_variant LOW 201C>T Ala67Ala
M0202250 OPCMHGHH_00011 6601 14 Gut 0.67 protein_coding missense_variant MODERATE 242T>C Val81Ala
M0202251 OPCMHGHH_00012 7290 15 Gut 0.71 protein_coding missense_variant MODERATE 304G>A Val102Ile
M0202252 OPCMHGHH_00012 7384 19 Gut 0.90 protein_coding synonymous_variant LOW 210C>T Pro70Pro
M0202253 OPCMHGHH_00006 7930 6 Gut 0.29 protein_coding upstream_gene_variant MODIFIER -4422T>C None
M0202254 OPCMHGHH_00002 3084 6 Gut 0.29 protein_coding upstream_gene_variant MODIFIER -1686T>C None
M0202255 OPCMHGHH_00002 3837 9 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -2439G>C None
M0202256 OPCMHGHH_00002 3874 10 Gut 0.48 protein_coding upstream_gene_variant MODIFIER -2476T>G None
M0202257 OPCMHGHH_00009 5569 8 Gut 0.38 protein_coding synonymous_variant LOW 927A>G Leu309Leu
M0202258 OPCMHGHH_00010 6207 8 Gut 0.38 protein_coding synonymous_variant LOW 522T>A Gly174Gly
M0202259 OPCMHGHH_00011 6501 8 Gut 0.38 protein_coding synonymous_variant LOW 342T>C Phe114Phe
M0202260 OPCMHGHH_00011 6648 7 Gut 0.33 protein_coding synonymous_variant LOW 195T>C Asp65Asp
M0202261 OPCMHGHH_00002 3870 5 Gut 0.24 protein_coding upstream_gene_variant MODIFIER -2472A>G None
M0202262 OPCMHGHH_00002 3886 4 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2488G>A None
M0202263 OPCMHGHH_00002 4131 6 Gut 0.29 protein_coding upstream_gene_variant MODIFIER -2733A>G None
M0202264 OPCMHGHH_00009 5173 7 Gut 0.33 protein_coding synonymous_variant LOW 531T>C Pro177Pro
M0202265 OPCMHGHH_00011 6756 6 Gut 0.29 protein_coding synonymous_variant LOW 87C>A Pro29Pro
M0202266 OPCMHGHH_00006 3449 4 Gut 0.19 protein_coding synonymous_variant LOW 60T>A Pro20Pro
M0202267 OPCMHGHH_00002 4144 4 Gut 0.19 protein_coding upstream_gene_variant MODIFIER -2746T>C None
M0202268 OPCMHGHH_00011 6573 3 Gut 0.14 protein_coding missense_variant MODERATE 270G>A Met90Ile
M0202269 OPCMHGHH_00006 7929 3 Gut 0.14 protein_coding upstream_gene_variant MODIFIER -4421C>T None
M0202270 OPCMHGHH_00012 7233 3 Gut 0.14 protein_coding synonymous_variant LOW 361C>T Leu121Leu






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