Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C761
  Reference Plasmid   NZ_CP058956.1
  Reference Plasmid Size   43513
  Reference Plasmid GC Content   0.44
  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
M0175175 DOIJOLEJ_00028 29069 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -3254G>A None
M0175176 DOIJOLEJ_00028 29116 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -3301A>G None
M0175177 DOIJOLEJ_00028 29129 3 Gut 0.60 protein_coding upstream_gene_variant MODIFIER -3314G>A None
M0175178 DOIJOLEJ_00028 29150 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -3335C>T None
M0175179 DOIJOLEJ_00028 29151 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -3336T>C None
M0175180 DOIJOLEJ_00028 29168 4 Gut 0.80 protein_coding upstream_gene_variant MODIFIER -3353C>T None
M0175181 DOIJOLEJ_00030 29185 4 Gut 0.80 protein_coding synonymous_variant LOW 1224G>A Thr408Thr
M0175182 DOIJOLEJ_00030 29186 4 Gut 0.80 protein_coding missense_variant MODERATE 1223C>T Thr408Met
M0175183 DOIJOLEJ_00030 29194 4 Gut 0.80 protein_coding synonymous_variant LOW 1215T>C Ser405Ser
M0175184 DOIJOLEJ_00030 29215 4 Gut 0.80 protein_coding synonymous_variant LOW 1194C>T Gly398Gly
M0175185 DOIJOLEJ_00030 29218 4 Gut 0.80 protein_coding synonymous_variant LOW 1191C>T Ser397Ser
M0175186 DOIJOLEJ_00030 29233 4 Gut 0.80 protein_coding synonymous_variant LOW 1176T>G Gly392Gly
M0175187 DOIJOLEJ_00030 29238 4 Gut 0.80 protein_coding synonymous_variant LOW 1171T>C Leu391Leu
M0175188 DOIJOLEJ_00030 29263 4 Gut 0.80 protein_coding synonymous_variant LOW 1146G>C Arg382Arg
M0175189 DOIJOLEJ_00030 29269 4 Gut 0.80 protein_coding synonymous_variant LOW 1140C>T Asp380Asp
M0175190 DOIJOLEJ_00030 29275 4 Gut 0.80 protein_coding synonymous_variant LOW 1134T>A Ser378Ser
M0175191 DOIJOLEJ_00030 29353 4 Gut 0.80 protein_coding synonymous_variant LOW 1056A>G Pro352Pro
M0175192 DOIJOLEJ_00030 29391 4 Gut 0.80 protein_coding missense_variant MODERATE 1018A>G Ile340Val
M0175193 DOIJOLEJ_00030 29467 4 Gut 0.80 protein_coding synonymous_variant LOW 942C>T Tyr314Tyr
M0175194 DOIJOLEJ_00030 29484 4 Gut 0.80 protein_coding missense_variant MODERATE 925A>G Thr309Ala
M0175195 DOIJOLEJ_00030 29533 4 Gut 0.80 protein_coding synonymous_variant LOW 876T>C Leu292Leu
M0175196 DOIJOLEJ_00030 29536 4 Gut 0.80 protein_coding synonymous_variant LOW 873C>T Thr291Thr
M0175197 DOIJOLEJ_00030 29653 4 Gut 0.80 protein_coding synonymous_variant LOW 756G>A Lys252Lys
M0175198 DOIJOLEJ_00030 29701 4 Gut 0.80 protein_coding missense_variant MODERATE 708A>G Ile236Met
M0175199 DOIJOLEJ_00030 29785 4 Gut 0.80 protein_coding synonymous_variant LOW 624C>T Val208Val
M0175200 DOIJOLEJ_00030 29827 4 Gut 0.80 protein_coding synonymous_variant LOW 582G>A Lys194Lys
M0175201 DOIJOLEJ_00030 29836 4 Gut 0.80 protein_coding synonymous_variant LOW 573T>C Ser191Ser
M0175202 DOIJOLEJ_00030 29865 4 Gut 0.80 protein_coding missense_variant MODERATE 544A>G Ile182Val
M0175203 DOIJOLEJ_00030 29881 4 Gut 0.80 protein_coding missense_variant MODERATE 528A>G Ile176Met
M0175204 DOIJOLEJ_00030 29884 4 Gut 0.80 protein_coding synonymous_variant LOW 525T>A Gly175Gly
M0175205 DOIJOLEJ_00030 29899 4 Gut 0.80 protein_coding synonymous_variant LOW 510C>T Gly170Gly
M0175206 DOIJOLEJ_00030 29917 4 Gut 0.80 protein_coding synonymous_variant LOW 492T>C Phe164Phe
M0175207 DOIJOLEJ_00030 30034 4 Gut 0.80 protein_coding synonymous_variant LOW 375T>C Phe125Phe
M0175208 DOIJOLEJ_00030 30040 3 Gut 0.60 protein_coding synonymous_variant LOW 369C>T Ile123Ile
M0175209 DOIJOLEJ_00030 30043 4 Gut 0.80 protein_coding synonymous_variant LOW 366T>G Pro122Pro
M0175210 DOIJOLEJ_00030 30052 4 Gut 0.80 protein_coding synonymous_variant LOW 357G>A Leu119Leu
M0175211 DOIJOLEJ_00030 30058 4 Gut 0.80 protein_coding missense_variant MODERATE 351G>T Glu117Asp
M0175212 DOIJOLEJ_00030 30077 4 Gut 0.80 protein_coding missense_variant MODERATE 332G>A Ser111Asn
M0175213 DOIJOLEJ_00030 30091 4 Gut 0.80 protein_coding synonymous_variant LOW 318T>C Asn106Asn
M0175214 DOIJOLEJ_00030 30097 4 Gut 0.80 protein_coding synonymous_variant LOW 312C>T Tyr104Tyr
M0175215 DOIJOLEJ_00030 30133 4 Gut 0.80 protein_coding synonymous_variant LOW 276G>A Lys92Lys
M0175216 DOIJOLEJ_00030 30157 4 Gut 0.80 protein_coding synonymous_variant LOW 252C>T Thr84Thr
M0175217 DOIJOLEJ_00030 30163 4 Gut 0.80 protein_coding synonymous_variant LOW 246C>T Tyr82Tyr
M0175218 DOIJOLEJ_00030 30223 4 Gut 0.80 protein_coding missense_variant MODERATE 186C>A Ser62Arg
M0175219 DOIJOLEJ_00030 30224 4 Gut 0.80 protein_coding missense_variant MODERATE 185G>A Ser62Asn
M0175220 DOIJOLEJ_00030 30248 4 Gut 0.80 protein_coding missense_variant MODERATE 161A>G Lys54Arg
M0175221 DOIJOLEJ_00030 30250 4 Gut 0.80 protein_coding synonymous_variant LOW 159T>C Asn53Asn
M0175222 DOIJOLEJ_00030 30278 4 Gut 0.80 protein_coding missense_variant MODERATE 131A>G Asn44Ser
M0175223 DOIJOLEJ_00030 30316 4 Gut 0.80 protein_coding synonymous_variant LOW 93G>A Gln31Gln
M0175224 DOIJOLEJ_00030 30334 4 Gut 0.80 protein_coding synonymous_variant LOW 75T>C Ser25Ser
M0175225 DOIJOLEJ_00030 30349 4 Gut 0.80 protein_coding synonymous_variant LOW 60A>G Ser20Ser
M0175226 DOIJOLEJ_00030 30358 4 Gut 0.80 protein_coding synonymous_variant LOW 51C>T Leu17Leu
M0175227 DOIJOLEJ_00030 30382 4 Gut 0.80 protein_coding synonymous_variant LOW 27T>C Cys9Cys
M0175228 DOIJOLEJ_00030 30385 4 Gut 0.80 protein_coding synonymous_variant LOW 24A>G Lys8Lys






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
DOIJOLEJ_00017 QLI95423.1|GH25 100 1.78e-239 1 314 1 1





        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