Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2429
  Reference Plasmid   1111525849768046_bin.37__k141_224336
  Reference Plasmid Size   8586
  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
M0125226 KHPHMKKH_00003 2759 5 Oral 0.71 protein_coding synonymous_variant LOW 390A>G Val130Val
M0125227 KHPHMKKH_00004 3058 3 Oral 0.43 protein_coding synonymous_variant LOW 204G>A Ser68Ser
M0125228 KHPHMKKH_00004 3061 3 Oral 0.43 protein_coding synonymous_variant LOW 207T>C Tyr69Tyr
M0125229 KHPHMKKH_00004 3064 3 Oral 0.43 protein_coding synonymous_variant LOW 210G>A Lys70Lys
M0125230 KHPHMKKH_00004 3196 5 Oral 0.71 protein_coding synonymous_variant LOW 342G>A Gly114Gly
M0125231 KHPHMKKH_00004 3211 4 Oral 0.57 protein_coding synonymous_variant LOW 357G>A Gln119Gln
M0125232 KHPHMKKH_00004 3214 4 Oral 0.57 protein_coding synonymous_variant LOW 360T>C Phe120Phe
M0125233 KHPHMKKH_00004 3253 3 Oral 0.43 protein_coding synonymous_variant LOW 399T>C Ser133Ser
M0125234 KHPHMKKH_00004 3331 3 Oral 0.43 protein_coding synonymous_variant LOW 477T>A Ala159Ala
M0125235 KHPHMKKH_00004 3388 4 Oral 0.57 protein_coding synonymous_variant LOW 534T>C Leu178Leu
M0125236 KHPHMKKH_00004 3403 3 Oral 0.43 protein_coding synonymous_variant LOW 549A>G Glu183Glu
M0125237 KHPHMKKH_00004 3439 4 Oral 0.57 protein_coding synonymous_variant LOW 585C>T Tyr195Tyr
M0125238 KHPHMKKH_00004 3571 4 Oral 0.57 protein_coding synonymous_variant LOW 717C>T Gly239Gly
M0125239 KHPHMKKH_00004 3574 5 Oral 0.71 protein_coding synonymous_variant LOW 720A>G Val240Val
M0125240 KHPHMKKH_00004 3592 4 Oral 0.57 protein_coding synonymous_variant LOW 738C>T Cys246Cys
M0125241 KHPHMKKH_00004 3685 4 Oral 0.57 protein_coding synonymous_variant LOW 831G>A Gly277Gly
M0125242 KHPHMKKH_00004 3805 4 Oral 0.57 protein_coding synonymous_variant LOW 951T>C Tyr317Tyr
M0125243 KHPHMKKH_00004 3919 3 Oral 0.43 protein_coding synonymous_variant LOW 1065G>T Thr355Thr
M0125244 KHPHMKKH_00004 4168 4 Oral 0.57 protein_coding synonymous_variant LOW 1314T>C Ala438Ala
M0125245 KHPHMKKH_00004 4262 4 Oral 0.57 protein_coding synonymous_variant LOW 1408C>T Leu470Leu
M0125246 KHPHMKKH_00004 4384 4 Oral 0.57 protein_coding synonymous_variant LOW 1530A>T Ile510Ile
M0125247 KHPHMKKH_00004 4387 3 Oral 0.43 protein_coding synonymous_variant LOW 1533A>G Gln511Gln
M0125248 KHPHMKKH_00004 4414 3 Oral 0.43 protein_coding synonymous_variant LOW 1560T>C Gly520Gly
M0125249 KHPHMKKH_00005 4593 3 Oral 0.43 protein_coding synonymous_variant LOW 96C>T Val32Val
M0125250 KHPHMKKH_00005 4754 3 Oral 0.43 protein_coding missense_variant MODERATE 257A>G Asn86Ser
M0125251 KHPHMKKH_00005 4839 3 Oral 0.43 protein_coding synonymous_variant LOW 342A>T Ile114Ile
M0125252 KHPHMKKH_00005 4842 3 Oral 0.43 protein_coding synonymous_variant LOW 345T>C Asn115Asn
M0125253 KHPHMKKH_00005 4848 3 Oral 0.43 protein_coding synonymous_variant LOW 351T>C Asn117Asn
M0125254 KHPHMKKH_00005 4849 3 Oral 0.43 protein_coding missense_variant MODERATE 352G>A Gly118Ser
M0125255 KHPHMKKH_00005 4983 3 Oral 0.43 protein_coding synonymous_variant LOW 486T>C Asn162Asn
M0125256 KHPHMKKH_00005 5058 3 Oral 0.43 protein_coding synonymous_variant LOW 561T>A Leu187Leu
M0125257 KHPHMKKH_00005 5112 3 Oral 0.43 protein_coding synonymous_variant LOW 615C>T Ala205Ala
M0125258 KHPHMKKH_00005 5136 3 Oral 0.43 protein_coding synonymous_variant LOW 639A>G Glu213Glu
M0125259 KHPHMKKH_00005 5172 3 Oral 0.43 protein_coding synonymous_variant LOW 675A>G Glu225Glu
M0125260 KHPHMKKH_00005 5214 3 Oral 0.43 protein_coding synonymous_variant LOW 717T>C Cys239Cys
M0125261 KHPHMKKH_00006 5288 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -82C>A None
M0125262 KHPHMKKH_00006 5295 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -75A>G None
M0125263 KHPHMKKH_00006 5312 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -58C>G None
M0125264 KHPHMKKH_00001 98 3 Oral 0.43 protein_coding synonymous_variant LOW 81A>G Ser27Ser
M0125265 KHPHMKKH_00001 102 3 Oral 0.43 protein_coding synonymous_variant LOW 85C>T Leu29Leu
M0125266 KHPHMKKH_00001 131 3 Oral 0.43 protein_coding synonymous_variant LOW 114C>T Asn38Asn
M0125267 KHPHMKKH_00001 393 3 Oral 0.43 protein_coding missense_variant MODERATE 376A>G Thr126Ala
M0125268 KHPHMKKH_00001 464 3 Oral 0.43 protein_coding synonymous_variant LOW 447G>A Val149Val
M0125269 KHPHMKKH_00001 1037 3 Oral 0.43 protein_coding synonymous_variant LOW 1020T>C Ile340Ile
M0125270 KHPHMKKH_00001 1148 3 Oral 0.43 protein_coding synonymous_variant LOW 1131T>A Ile377Ile
M0125271 KHPHMKKH_00001 1309 4 Oral 0.57 protein_coding stop_lost&splice_region_variant HIGH 1292A>C Ter431Serext*?
M0125272 KHPHMKKH_00002 1318 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -31T>C None
M0125273 KHPHMKKH_00002 1348 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -1T>C None
M0125274 KHPHMKKH_00002 1420 4 Oral 0.57 protein_coding synonymous_variant LOW 72T>C Ile24Ile
M0125275 KHPHMKKH_00002 1513 4 Oral 0.57 protein_coding synonymous_variant LOW 165A>G Leu55Leu
M0125276 KHPHMKKH_00002 1534 4 Oral 0.57 protein_coding synonymous_variant LOW 186T>C Ala62Ala
M0125277 KHPHMKKH_00002 1561 3 Oral 0.43 protein_coding synonymous_variant LOW 213T>C Ser71Ser
M0125278 KHPHMKKH_00002 1642 3 Oral 0.43 protein_coding synonymous_variant LOW 294T>C His98His
M0125279 KHPHMKKH_00002 1720 4 Oral 0.57 protein_coding synonymous_variant LOW 372G>A Ala124Ala
M0125280 KHPHMKKH_00002 1843 4 Oral 0.57 protein_coding synonymous_variant LOW 495T>C Ser165Ser
M0125281 KHPHMKKH_00002 1866 4 Oral 0.57 protein_coding missense_variant MODERATE 518G>A Arg173Gln
M0125282 KHPHMKKH_00003 2261 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -109G>A None
M0125283 KHPHMKKH_00003 2271 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -99A>G None
M0125284 KHPHMKKH_00003 2316 4 Oral 0.57 protein_coding upstream_gene_variant MODIFIER -54A>G None
M0125285 KHPHMKKH_00003 2501 4 Oral 0.57 protein_coding missense_variant MODERATE 132C>G Asp44Glu
M0125286 KHPHMKKH_00003 2558 3 Oral 0.43 protein_coding synonymous_variant LOW 189A>G Leu63Leu
M0125287 KHPHMKKH_00003 2582 4 Oral 0.57 protein_coding synonymous_variant LOW 213C>T Asp71Asp
M0125288 KHPHMKKH_00003 2664 4 Oral 0.57 protein_coding missense_variant MODERATE 295A>G Ile99Val
M0125289 KHPHMKKH_00004 3205 3 Oral 0.43 protein_coding synonymous_variant LOW 351T>C Tyr117Tyr
M0125290 KHPHMKKH_00004 4273 3 Oral 0.43 protein_coding synonymous_variant LOW 1419A>G Val473Val
M0125291 KHPHMKKH_00002 1784 3 Oral 0.43 protein_coding missense_variant MODERATE 436C>A Gln146Lys
M0125292 KHPHMKKH_00002 1786 3 Oral 0.43 protein_coding missense_variant MODERATE 438A>T Gln146His
M0125293 KHPHMKKH_00002 1788 3 Oral 0.43 protein_coding missense_variant MODERATE 440G>A Ser147Asn
M0125294 KHPHMKKH_00002 1793 3 Oral 0.43 protein_coding missense_variant MODERATE 445A>G Lys149Glu
M0125295 KHPHMKKH_00002 1794 3 Oral 0.43 protein_coding missense_variant MODERATE 446A>G Lys149Arg
M0125296 KHPHMKKH_00004 3268 3 Oral 0.43 protein_coding synonymous_variant LOW 414T>C Asn138Asn






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