Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2420
  Reference Plasmid   1111525849768046_bin.37__k141_204384
  Reference Plasmid Size   4808
  Reference Plasmid GC Content   0.41
  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
M0124229 KIOKOIDF_00001 246 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *969T>C None
M0124230 KIOKOIDF_00001 369 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *846C>T None
M0124231 KIOKOIDF_00001 390 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *825A>G None
M0124232 KIOKOIDF_00001 555 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *660A>G None
M0124233 KIOKOIDF_00001 912 4 Oral 0.80 protein_coding downstream_gene_variant MODIFIER *303C>T None
M0124234 KIOKOIDF_00001 1180 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *35T>C None
M0124235 KIOKOIDF_00001 1196 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *19A>G None
M0124236 KIOKOIDF_00001 1233 3 Oral 0.60 protein_coding synonymous_variant LOW 813C>T Gly271Gly
M0124237 KIOKOIDF_00001 1310 3 Oral 0.60 protein_coding missense_variant MODERATE 736A>G Lys246Glu
M0124238 KIOKOIDF_00001 1581 3 Oral 0.60 protein_coding synonymous_variant LOW 465A>G Glu155Glu
M0124239 KIOKOIDF_00001 1638 4 Oral 0.80 protein_coding synonymous_variant LOW 408G>A Gly136Gly
M0124240 KIOKOIDF_00001 1644 4 Oral 0.80 protein_coding synonymous_variant LOW 402G>A Gly134Gly
M0124241 KIOKOIDF_00001 1668 4 Oral 0.80 protein_coding synonymous_variant LOW 378A>G Val126Val
M0124242 KIOKOIDF_00001 1746 3 Oral 0.60 protein_coding synonymous_variant LOW 300C>T Pro100Pro
M0124243 KIOKOIDF_00001 1827 4 Oral 0.80 protein_coding synonymous_variant LOW 219G>A Gly73Gly
M0124244 KIOKOIDF_00001 1893 4 Oral 0.80 protein_coding synonymous_variant LOW 153A>G Glu51Glu
M0124245 KIOKOIDF_00001 1906 3 Oral 0.60 protein_coding missense_variant MODERATE 140G>T Arg47Ile
M0124246 KIOKOIDF_00001 1914 3 Oral 0.60 protein_coding synonymous_variant LOW 132G>A Gln44Gln
M0124247 KIOKOIDF_00002 2137 3 Oral 0.60 protein_coding synonymous_variant LOW 1551A>C Thr517Thr
M0124248 KIOKOIDF_00002 2250 4 Oral 0.80 protein_coding synonymous_variant LOW 1438C>T Leu480Leu
M0124249 KIOKOIDF_00002 2252 4 Oral 0.80 protein_coding missense_variant MODERATE 1436G>C Ser479Thr
M0124250 KIOKOIDF_00002 2335 3 Oral 0.60 protein_coding synonymous_variant LOW 1353A>T Gly451Gly
M0124251 KIOKOIDF_00002 2671 4 Oral 0.80 protein_coding synonymous_variant LOW 1017G>A Val339Val
M0124252 KIOKOIDF_00002 2965 3 Oral 0.60 protein_coding synonymous_variant LOW 723T>C Asp241Asp
M0124253 KIOKOIDF_00002 3283 4 Oral 0.80 protein_coding synonymous_variant LOW 405T>C Thr135Thr
M0124254 KIOKOIDF_00002 3298 4 Oral 0.80 protein_coding synonymous_variant LOW 390T>C Asp130Asp
M0124255 KIOKOIDF_00002 3337 4 Oral 0.80 protein_coding synonymous_variant LOW 351T>C Tyr117Tyr
M0124256 KIOKOIDF_00002 3391 4 Oral 0.80 protein_coding synonymous_variant LOW 297A>G Leu99Leu
M0124257 KIOKOIDF_00002 3475 4 Oral 0.80 protein_coding synonymous_variant LOW 213T>C Phe71Phe
M0124258 KIOKOIDF_00002 3643 3 Oral 0.60 protein_coding synonymous_variant LOW 45T>C Val15Val
M0124259 KIOKOIDF_00002 3660 4 Oral 0.80 protein_coding missense_variant MODERATE 28G>A Val10Ile
M0124260 KIOKOIDF_00003 3789 3 Oral 0.60 protein_coding synonymous_variant LOW 975C>T Asp325Asp
M0124261 KIOKOIDF_00003 3852 4 Oral 0.80 protein_coding synonymous_variant LOW 912A>T Ser304Ser
M0124262 KIOKOIDF_00003 3945 4 Oral 0.80 protein_coding synonymous_variant LOW 819T>G Val273Val
M0124263 KIOKOIDF_00003 3957 4 Oral 0.80 protein_coding synonymous_variant LOW 807T>G Thr269Thr
M0124264 KIOKOIDF_00003 4059 4 Oral 0.80 protein_coding synonymous_variant LOW 705C>T Asp235Asp
M0124265 KIOKOIDF_00003 4113 3 Oral 0.60 protein_coding synonymous_variant LOW 651C>T Leu217Leu
M0124266 KIOKOIDF_00003 4125 4 Oral 0.80 protein_coding synonymous_variant LOW 639T>C Gly213Gly
M0124267 KIOKOIDF_00003 4185 4 Oral 0.80 protein_coding synonymous_variant LOW 579A>G Leu193Leu
M0124268 KIOKOIDF_00003 4265 4 Oral 0.80 protein_coding missense_variant MODERATE 499G>A Ala167Thr
M0124269 KIOKOIDF_00003 4305 3 Oral 0.60 protein_coding synonymous_variant LOW 459G>A Glu153Glu
M0124270 KIOKOIDF_00003 4497 3 Oral 0.60 protein_coding synonymous_variant LOW 267A>G Val89Val
M0124271 KIOKOIDF_00003 4524 4 Oral 0.80 protein_coding synonymous_variant LOW 240T>A Val80Val
M0124272 KIOKOIDF_00003 4529 4 Oral 0.80 protein_coding missense_variant MODERATE 235T>G Ser79Ala
M0124273 KIOKOIDF_00003 4599 4 Oral 0.80 protein_coding synonymous_variant LOW 165T>C Leu55Leu
M0124274 KIOKOIDF_00003 4626 3 Oral 0.60 protein_coding synonymous_variant LOW 138T>C Tyr46Tyr
M0124275 KIOKOIDF_00003 4701 4 Oral 0.80 protein_coding synonymous_variant LOW 63T>C Asp21Asp
M0124276 KIOKOIDF_00001 693 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *522T>C None
M0124277 KIOKOIDF_00001 789 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *426T>C None
M0124278 KIOKOIDF_00001 927 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *288T>A None
M0124279 KIOKOIDF_00001 1059 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *156T>G None
M0124280 KIOKOIDF_00001 1141 3 Oral 0.60 protein_coding downstream_gene_variant MODIFIER *74T>G None
M0124281 KIOKOIDF_00001 1781 3 Oral 0.60 protein_coding missense_variant MODERATE 265C>A Leu89Ile
M0124282 KIOKOIDF_00002 2296 3 Oral 0.60 protein_coding synonymous_variant LOW 1392C>T Gly464Gly
M0124283 KIOKOIDF_00002 2299 3 Oral 0.60 protein_coding synonymous_variant LOW 1389T>C Phe463Phe
M0124284 KIOKOIDF_00002 2305 3 Oral 0.60 protein_coding synonymous_variant LOW 1383T>C Tyr461Tyr
M0124285 KIOKOIDF_00002 2308 3 Oral 0.60 protein_coding synonymous_variant LOW 1380G>A Glu460Glu
M0124286 KIOKOIDF_00002 2374 3 Oral 0.60 protein_coding synonymous_variant LOW 1314A>T Pro438Pro
M0124287 KIOKOIDF_00002 2914 3 Oral 0.60 protein_coding synonymous_variant LOW 774T>C His258His
M0124288 KIOKOIDF_00002 2932 3 Oral 0.60 protein_coding synonymous_variant LOW 756C>T Thr252Thr
M0124289 KIOKOIDF_00002 3208 3 Oral 0.60 protein_coding synonymous_variant LOW 480A>T Pro160Pro
M0124290 KIOKOIDF_00002 3384 3 Oral 0.60 protein_coding missense_variant MODERATE 304G>A Gly102Ser
M0124291 KIOKOIDF_00001 3743 3 Oral 0.60 protein_coding upstream_gene_variant MODIFIER -1698G>A None
M0124292 KIOKOIDF_00003 3747 3 Oral 0.60 protein_coding synonymous_variant LOW 1017A>C Leu339Leu
M0124293 KIOKOIDF_00003 4053 3 Oral 0.60 protein_coding synonymous_variant LOW 711C>T Gly237Gly
M0124294 KIOKOIDF_00003 4557 3 Oral 0.60 protein_coding synonymous_variant LOW 207G>A Leu69Leu






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
KIOKOIDF_00002 EFC70623.1|GH63 95.2 0 1 543 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