Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2479
  Reference Plasmid   1111525849768046_bin.37__k141_98996
  Reference Plasmid Size   5734
  Reference Plasmid GC Content   0.36
  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
M0129312 MPENOGPN_00001 63 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -543C>T None
M0129313 MPENOGPN_00001 66 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -540T>A None
M0129314 MPENOGPN_00001 69 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -537T>C None
M0129315 MPENOGPN_00001 72 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -534A>G None
M0129316 MPENOGPN_00001 75 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -531A>T None
M0129317 MPENOGPN_00001 90 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -516G>A None
M0129318 MPENOGPN_00001 91 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -515C>T None
M0129319 MPENOGPN_00001 105 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -501C>T None
M0129320 MPENOGPN_00001 180 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -426A>G None
M0129321 MPENOGPN_00001 222 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -384A>C None
M0129322 MPENOGPN_00001 345 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -261C>A None
M0129323 MPENOGPN_00001 980 5 Oral 0.71 protein_coding synonymous_variant LOW 375C>T Arg125Arg
M0129324 MPENOGPN_00001 1143 4 Oral 0.57 protein_coding missense_variant MODERATE 538T>G Cys180Gly
M0129325 MPENOGPN_00001 1223 4 Oral 0.57 protein_coding synonymous_variant LOW 618G>A Gly206Gly
M0129326 MPENOGPN_00002 1905 3 Oral 0.43 protein_coding synonymous_variant LOW 222A>G Val74Val
M0129327 MPENOGPN_00002 2661 3 Oral 0.43 protein_coding synonymous_variant LOW 978A>G Lys326Lys
M0129328 MPENOGPN_00002 2669 3 Oral 0.43 protein_coding missense_variant MODERATE 986A>G Asn329Ser
M0129329 MPENOGPN_00003 3755 4 Oral 0.57 protein_coding synonymous_variant LOW 270T>C Val90Val
M0129330 MPENOGPN_00003 3821 4 Oral 0.57 protein_coding synonymous_variant LOW 336C>T Ile112Ile
M0129331 MPENOGPN_00003 3865 3 Oral 0.43 protein_coding missense_variant MODERATE 380C>A Ala127Glu
M0129332 MPENOGPN_00003 3875 3 Oral 0.43 protein_coding synonymous_variant LOW 390G>A Leu130Leu
M0129333 MPENOGPN_00003 3944 3 Oral 0.43 protein_coding synonymous_variant LOW 459T>C Ser153Ser
M0129334 MPENOGPN_00003 3962 3 Oral 0.43 protein_coding synonymous_variant LOW 477C>A Gly159Gly
M0129335 MPENOGPN_00003 3968 4 Oral 0.57 protein_coding synonymous_variant LOW 483C>T Gly161Gly
M0129336 MPENOGPN_00003 3980 3 Oral 0.43 protein_coding synonymous_variant LOW 495A>G Lys165Lys
M0129337 MPENOGPN_00003 4005 3 Oral 0.43 protein_coding missense_variant MODERATE 520C>A Leu174Ile
M0129338 MPENOGPN_00003 4008 3 Oral 0.43 protein_coding missense_variant MODERATE 523C>G Gln175Glu
M0129339 MPENOGPN_00003 4013 3 Oral 0.43 protein_coding synonymous_variant LOW 528T>C Asp176Asp
M0129340 MPENOGPN_00003 4016 3 Oral 0.43 protein_coding synonymous_variant LOW 531T>C Ala177Ala
M0129341 MPENOGPN_00003 4037 3 Oral 0.43 protein_coding synonymous_variant LOW 552C>T Gly184Gly
M0129342 MPENOGPN_00003 4067 3 Oral 0.43 protein_coding synonymous_variant LOW 582T>A Pro194Pro
M0129343 MPENOGPN_00003 4070 3 Oral 0.43 protein_coding synonymous_variant LOW 585G>A Ala195Ala
M0129344 MPENOGPN_00003 4071 3 Oral 0.43 protein_coding missense_variant MODERATE 586C>G Leu196Val
M0129345 MPENOGPN_00003 4101 3 Oral 0.43 protein_coding missense_variant MODERATE 616G>A Asp206Asn
M0129346 MPENOGPN_00003 4109 4 Oral 0.57 protein_coding synonymous_variant LOW 624T>A Pro208Pro
M0129347 MPENOGPN_00003 4112 3 Oral 0.43 protein_coding synonymous_variant LOW 627T>A Thr209Thr
M0129348 MPENOGPN_00003 4124 3 Oral 0.43 protein_coding synonymous_variant LOW 639G>A Gly213Gly
M0129349 MPENOGPN_00003 4151 3 Oral 0.43 protein_coding synonymous_variant LOW 666T>A Ile222Ile
M0129350 MPENOGPN_00003 4157 3 Oral 0.43 protein_coding synonymous_variant LOW 672A>G Val224Val
M0129351 MPENOGPN_00003 4163 3 Oral 0.43 protein_coding synonymous_variant LOW 678A>G Ala226Ala
M0129352 MPENOGPN_00003 4172 4 Oral 0.57 protein_coding synonymous_variant LOW 687T>C Leu229Leu
M0129353 MPENOGPN_00003 4232 4 Oral 0.57 protein_coding synonymous_variant LOW 747A>T Ile249Ile
M0129354 MPENOGPN_00003 4261 4 Oral 0.57 protein_coding missense_variant MODERATE 776C>T Ser259Leu
M0129355 MPENOGPN_00001 4308 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *2743G>T None
M0129356 MPENOGPN_00001 4329 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *2764G>A None
M0129357 MPENOGPN_00001 4536 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *2971G>A None
M0129358 MPENOGPN_00001 4566 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3001A>G None
M0129359 MPENOGPN_00001 4992 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3427T>C None
M0129360 MPENOGPN_00001 5034 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3469G>A None
M0129361 MPENOGPN_00001 5037 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3472A>G None
M0129362 MPENOGPN_00001 5046 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3481T>C None
M0129363 MPENOGPN_00001 5263 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *3698T>C None
M0129364 MPENOGPN_00001 5283 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *3718T>G None
M0129365 MPENOGPN_00001 5301 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3736C>T None
M0129366 MPENOGPN_00001 5364 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3799C>A None
M0129367 MPENOGPN_00001 5478 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3913T>C None
M0129368 MPENOGPN_00001 5487 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3922T>A None
M0129369 MPENOGPN_00001 5502 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3937C>T None
M0129370 MPENOGPN_00001 5523 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3958T>C None
M0129371 MPENOGPN_00001 5529 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3964A>G None
M0129372 MPENOGPN_00001 5550 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3985T>C None
M0129373 MPENOGPN_00001 5643 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *4078G>T None
M0129374 MPENOGPN_00001 5671 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *4106G>A None
M0129375 MPENOGPN_00001 5692 4 Oral 0.57 protein_coding downstream_gene_variant MODIFIER *4127G>T None
M0129376 MPENOGPN_00002 2994 3 Oral 0.43 protein_coding synonymous_variant LOW 1311T>C Tyr437Tyr
M0129377 MPENOGPN_00002 3000 3 Oral 0.43 protein_coding synonymous_variant LOW 1317A>G Lys439Lys
M0129378 MPENOGPN_00002 3021 3 Oral 0.43 protein_coding synonymous_variant LOW 1338C>A Gly446Gly
M0129379 MPENOGPN_00002 3036 3 Oral 0.43 protein_coding synonymous_variant LOW 1353T>A Gly451Gly
M0129380 MPENOGPN_00002 3126 3 Oral 0.43 protein_coding synonymous_variant LOW 1443G>A Thr481Thr
M0129381 MPENOGPN_00003 3358 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -128C>T None
M0129382 MPENOGPN_00003 3359 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -127A>G None
M0129383 MPENOGPN_00003 3382 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -104A>G None
M0129384 MPENOGPN_00003 3383 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -103A>T None
M0129385 MPENOGPN_00003 3390 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -96A>C None
M0129386 MPENOGPN_00003 3395 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -91G>A None
M0129387 MPENOGPN_00003 3425 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -61T>C None
M0129388 MPENOGPN_00003 3476 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -10A>G None
M0129389 MPENOGPN_00003 3480 3 Oral 0.43 protein_coding upstream_gene_variant MODIFIER -6C>A None
M0129390 MPENOGPN_00003 3512 3 Oral 0.43 protein_coding synonymous_variant LOW 27A>C Thr9Thr
M0129391 MPENOGPN_00003 3551 3 Oral 0.43 protein_coding synonymous_variant LOW 66A>G Lys22Lys
M0129392 MPENOGPN_00003 3575 3 Oral 0.43 protein_coding synonymous_variant LOW 90C>T Leu30Leu
M0129393 MPENOGPN_00003 3584 3 Oral 0.43 protein_coding synonymous_variant LOW 99C>T Tyr33Tyr
M0129394 MPENOGPN_00003 3599 3 Oral 0.43 protein_coding synonymous_variant LOW 114T>C Ala38Ala
M0129395 MPENOGPN_00003 3606 3 Oral 0.43 protein_coding missense_variant MODERATE 121G>A Val41Ile
M0129396 MPENOGPN_00003 3621 3 Oral 0.43 protein_coding missense_variant MODERATE 136A>G Ile46Val
M0129397 MPENOGPN_00003 3623 3 Oral 0.43 protein_coding synonymous_variant LOW 138A>T Ile46Ile
M0129398 MPENOGPN_00003 3650 3 Oral 0.43 protein_coding synonymous_variant LOW 165A>T Ala55Ala
M0129399 MPENOGPN_00003 3656 3 Oral 0.43 protein_coding synonymous_variant LOW 171C>T Asn57Asn
M0129400 MPENOGPN_00003 3692 3 Oral 0.43 protein_coding synonymous_variant LOW 207T>G Thr69Thr
M0129401 MPENOGPN_00001 5161 3 Oral 0.43 protein_coding downstream_gene_variant MODIFIER *3596C>A None
M0129402 MPENOGPN_00002 1794 3 Oral 0.43 protein_coding synonymous_variant LOW 111T>A Thr37Thr
M0129403 MPENOGPN_00002 2097 3 Oral 0.43 protein_coding synonymous_variant LOW 414G>T Gly138Gly
M0129404 MPENOGPN_00002 2169 3 Oral 0.43 protein_coding synonymous_variant LOW 486T>C Asn162Asn






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