Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C764
  Reference Plasmid   NZ_CP059290.1
  Reference Plasmid Size   92457
  Reference Plasmid GC Content   0.48
  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
M0175233 FGHHEDJI_00075 65991 3 Gut 0.43 protein_coding missense_variant MODERATE 1654G>A Ala552Thr
M0175234 FGHHEDJI_00075 66061 3 Gut 0.43 protein_coding synonymous_variant LOW 1584C>T Thr528Thr
M0175235 FGHHEDJI_00075 66085 3 Gut 0.43 protein_coding synonymous_variant LOW 1560C>T Ile520Ile
M0175236 FGHHEDJI_00075 66105 3 Gut 0.43 protein_coding missense_variant MODERATE 1540C>A Gln514Lys
M0175237 FGHHEDJI_00075 66151 3 Gut 0.43 protein_coding synonymous_variant LOW 1494G>A Leu498Leu
M0175238 FGHHEDJI_00020 17764 3 Gut 0.43 protein_coding synonymous_variant LOW 360T>G Val120Val
M0175239 FGHHEDJI_00023 20177 3 Gut 0.43 protein_coding synonymous_variant LOW 741G>T Thr247Thr
M0175240 FGHHEDJI_00023 20570 3 Gut 0.43 protein_coding synonymous_variant LOW 348T>C Tyr116Tyr
M0175241 FGHHEDJI_00023 20714 3 Gut 0.43 protein_coding synonymous_variant LOW 204T>C Ser68Ser
M0175242 FGHHEDJI_00023 20900 3 Gut 0.43 protein_coding synonymous_variant LOW 18T>G Pro6Pro
M0175243 FGHHEDJI_00024 21022 3 Gut 0.43 protein_coding synonymous_variant LOW 249C>T Pro83Pro
M0175244 FGHHEDJI_00024 21049 3 Gut 0.43 protein_coding synonymous_variant LOW 222T>G Leu74Leu
M0175245 FGHHEDJI_00025 24549 3 Gut 0.43 protein_coding synonymous_variant LOW 114T>G Gly38Gly
M0175246 FGHHEDJI_00028 26448 3 Gut 0.43 protein_coding synonymous_variant LOW 381A>G Leu127Leu
M0175247 FGHHEDJI_00028 26501 3 Gut 0.43 protein_coding synonymous_variant LOW 328T>C Leu110Leu
M0175248 FGHHEDJI_00028 26541 3 Gut 0.43 protein_coding synonymous_variant LOW 288G>A Pro96Pro
M0175249 FGHHEDJI_00029 27336 3 Gut 0.43 protein_coding missense_variant MODERATE 28A>C Ile10Leu
M0175250 FGHHEDJI_00030 27640 3 Gut 0.43 protein_coding synonymous_variant LOW 423G>T Pro141Pro
M0175251 FGHHEDJI_00030 27643 3 Gut 0.43 protein_coding synonymous_variant LOW 420A>C Ser140Ser
M0175252 FGHHEDJI_00030 27645 3 Gut 0.43 protein_coding missense_variant MODERATE 418T>G Ser140Ala
M0175253 FGHHEDJI_00030 27646 3 Gut 0.43 protein_coding synonymous_variant LOW 417C>T Asn139Asn
M0175254 FGHHEDJI_00030 27658 3 Gut 0.43 protein_coding synonymous_variant LOW 405T>C Asp135Asp
M0175255 FGHHEDJI_00025 28144 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3482A>T None
M0175256 FGHHEDJI_00025 28288 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3626T>C None
M0175257 FGHHEDJI_00025 28289 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3627G>A None
M0175258 FGHHEDJI_00025 28291 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3629A>T None
M0175259 FGHHEDJI_00025 28292 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3630T>C None
M0175260 FGHHEDJI_00025 28293 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3631G>A None
M0175261 FGHHEDJI_00025 28310 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3648A>T None
M0175262 FGHHEDJI_00025 28400 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3738C>T None
M0175263 FGHHEDJI_00025 28401 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3739A>G None
M0175264 FGHHEDJI_00025 28402 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3740T>A None
M0175265 FGHHEDJI_00025 28404 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3742C>T None
M0175266 FGHHEDJI_00025 28405 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3743A>G None
M0175267 FGHHEDJI_00025 28454 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3792G>T None
M0175268 FGHHEDJI_00025 28465 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -3803A>T None
M0175269 FGHHEDJI_00031 28544 3 Gut 0.43 protein_coding synonymous_variant LOW 57C>T Cys19Cys
M0175270 FGHHEDJI_00031 28568 3 Gut 0.43 protein_coding synonymous_variant LOW 81C>T Val27Val
M0175271 FGHHEDJI_00032 28713 3 Gut 0.43 protein_coding missense_variant MODERATE 8A>C Lys3Thr
M0175272 FGHHEDJI_00032 28735 3 Gut 0.43 protein_coding missense_variant MODERATE 30C>A Asp10Glu
M0175273 FGHHEDJI_00032 28754 3 Gut 0.43 protein_coding synonymous_variant LOW 49C>T Leu17Leu
M0175274 FGHHEDJI_00032 28762 3 Gut 0.43 protein_coding synonymous_variant LOW 57T>A Thr19Thr
M0175275 FGHHEDJI_00032 28763 3 Gut 0.43 protein_coding missense_variant MODERATE 58G>A Ala20Thr
M0175276 FGHHEDJI_00032 28764 3 Gut 0.43 protein_coding missense_variant MODERATE 59C>T Ala20Val
M0175277 FGHHEDJI_00032 28801 3 Gut 0.43 protein_coding synonymous_variant LOW 96T>C Ala32Ala
M0175278 FGHHEDJI_00032 28972 3 Gut 0.43 protein_coding synonymous_variant LOW 267G>A Leu89Leu
M0175279 FGHHEDJI_00032 28997 3 Gut 0.43 protein_coding missense_variant MODERATE 292A>G Thr98Ala
M0175280 FGHHEDJI_00032 28999 3 Gut 0.43 protein_coding synonymous_variant LOW 294G>T Thr98Thr
M0175281 FGHHEDJI_00032 29021 3 Gut 0.43 protein_coding missense_variant MODERATE 316G>C Val106Leu
M0175282 FGHHEDJI_00032 29027 3 Gut 0.43 protein_coding missense_variant MODERATE 322A>G Ile108Val
M0175283 FGHHEDJI_00032 29029 3 Gut 0.43 protein_coding synonymous_variant LOW 324T>C Ile108Ile
M0175284 FGHHEDJI_00032 29061 3 Gut 0.43 protein_coding missense_variant MODERATE 356T>A Leu119Gln
M0175285 FGHHEDJI_00032 29062 3 Gut 0.43 protein_coding synonymous_variant LOW 357G>A Leu119Leu
M0175286 FGHHEDJI_00032 29066 3 Gut 0.43 protein_coding synonymous_variant LOW 361C>T Leu121Leu
M0175287 FGHHEDJI_00032 29071 3 Gut 0.43 protein_coding synonymous_variant LOW 366A>G Leu122Leu
M0175288 FGHHEDJI_00032 29314 3 Gut 0.43 protein_coding synonymous_variant LOW 609G>A Leu203Leu
M0175289 FGHHEDJI_00032 29365 3 Gut 0.43 protein_coding synonymous_variant LOW 660T>C Ala220Ala
M0175290 FGHHEDJI_00026 29821 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4196T>C None
M0175291 FGHHEDJI_00033 30468 3 Gut 0.43 protein_coding synonymous_variant LOW 552C>T Gly184Gly
M0175292 FGHHEDJI_00033 30682 3 Gut 0.43 protein_coding missense_variant MODERATE 766G>A Ala256Thr
M0175293 FGHHEDJI_00034 31350 3 Gut 0.43 protein_coding missense_variant MODERATE 568A>G Thr190Ala
M0175294 FGHHEDJI_00034 31424 3 Gut 0.43 protein_coding synonymous_variant LOW 642T>A Ala214Ala
M0175295 FGHHEDJI_00034 31449 3 Gut 0.43 protein_coding missense_variant MODERATE 667A>G Asn223Asp
M0175296 FGHHEDJI_00034 31476 3 Gut 0.43 protein_coding missense_variant MODERATE 694G>A Val232Ile
M0175297 FGHHEDJI_00035 31755 3 Gut 0.43 protein_coding missense_variant MODERATE 113A>G Gln38Arg
M0175298 FGHHEDJI_00035 31855 3 Gut 0.43 protein_coding synonymous_variant LOW 213T>A Pro71Pro
M0175299 FGHHEDJI_00029 31968 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4605G>A 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
FGHHEDJI_00075 PHI:3317 hsdR 73.1 0 1 1038 1.0000 1.0000 rodents Glasser's disease involved in pathogenicity 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
FGHHEDJI_00003 AJS09995.1|GH24 99.5 2.22e-137 1 185 1 1
FGHHEDJI_00025 SPE01079.1|GH23 100 0 1 1130 1 1
FGHHEDJI_00097 AYL89119.1|GH24 95.8 5.95000000010623e-314 1753 2255 0.2231 0.9031





        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
FGHHEDJI_00013 1.E.4.1.1 100 1.3e-54 1 109 1.0000 1.0000 1 Channels/Pores 1.E Holins 1.E.4 The LydA Holin (LydA Holin) Family