Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2468
  Reference Plasmid   1111525849768046_bin.37__k141_7504
  Reference Plasmid Size   5218
  Reference Plasmid GC Content   0.35
  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
M0128302 GOKCPGAJ_00001 148 6 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *61T>A None
M0128303 GOKCPGAJ_00001 155 6 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *54A>T None
M0128304 GOKCPGAJ_00001 171 6 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *38G>C None
M0128305 GOKCPGAJ_00001 224 6 Oral 0.67 protein_coding synonymous_variant LOW 1356A>G Ala452Ala
M0128306 GOKCPGAJ_00001 226 6 Oral 0.67 protein_coding missense_variant MODERATE 1354G>A Ala452Thr
M0128307 GOKCPGAJ_00001 227 4 Oral 0.44 protein_coding synonymous_variant LOW 1353C>T Thr451Thr
M0128308 GOKCPGAJ_00001 229 6 Oral 0.67 protein_coding missense_variant MODERATE 1351A>G Thr451Ala
M0128309 GOKCPGAJ_00001 236 6 Oral 0.67 protein_coding synonymous_variant LOW 1344A>T Thr448Thr
M0128310 GOKCPGAJ_00001 245 4 Oral 0.44 protein_coding missense_variant MODERATE 1335G>T Lys445Asn
M0128311 GOKCPGAJ_00001 250 6 Oral 0.67 protein_coding missense_variant MODERATE 1330T>G Ser444Ala
M0128312 GOKCPGAJ_00001 260 4 Oral 0.44 protein_coding missense_variant MODERATE 1320A>T Glu440Asp
M0128313 GOKCPGAJ_00001 261 4 Oral 0.44 protein_coding missense_variant MODERATE 1319A>G Glu440Gly
M0128314 GOKCPGAJ_00001 263 4 Oral 0.44 protein_coding synonymous_variant LOW 1317T>A Ser439Ser
M0128315 GOKCPGAJ_00001 392 6 Oral 0.67 protein_coding synonymous_variant LOW 1188T>C Asp396Asp
M0128316 GOKCPGAJ_00001 428 4 Oral 0.44 protein_coding synonymous_variant LOW 1152T>A Ile384Ile
M0128317 GOKCPGAJ_00001 431 6 Oral 0.67 protein_coding synonymous_variant LOW 1149T>C Phe383Phe
M0128318 GOKCPGAJ_00001 437 4 Oral 0.44 protein_coding synonymous_variant LOW 1143T>A Gly381Gly
M0128319 GOKCPGAJ_00001 470 4 Oral 0.44 protein_coding synonymous_variant LOW 1110C>T Phe370Phe
M0128320 GOKCPGAJ_00001 477 4 Oral 0.44 protein_coding missense_variant MODERATE 1103A>G Asn368Ser
M0128321 GOKCPGAJ_00001 509 6 Oral 0.67 protein_coding synonymous_variant LOW 1071T>G Ser357Ser
M0128322 GOKCPGAJ_00001 554 6 Oral 0.67 protein_coding synonymous_variant LOW 1026T>C Tyr342Tyr
M0128323 GOKCPGAJ_00001 655 6 Oral 0.67 protein_coding synonymous_variant LOW 925C>T Leu309Leu
M0128324 GOKCPGAJ_00001 818 8 Oral 0.89 protein_coding synonymous_variant LOW 762T>C Ser254Ser
M0128325 GOKCPGAJ_00001 848 4 Oral 0.44 protein_coding synonymous_variant LOW 732T>A Ser244Ser
M0128326 GOKCPGAJ_00001 851 8 Oral 0.89 protein_coding synonymous_variant LOW 729A>G Leu243Leu
M0128327 GOKCPGAJ_00001 1009 4 Oral 0.44 protein_coding synonymous_variant LOW 571T>C Leu191Leu
M0128328 GOKCPGAJ_00001 1025 7 Oral 0.78 protein_coding synonymous_variant LOW 555C>T Cys185Cys
M0128329 GOKCPGAJ_00001 1037 4 Oral 0.44 protein_coding synonymous_variant LOW 543C>T Tyr181Tyr
M0128330 GOKCPGAJ_00001 1127 4 Oral 0.44 protein_coding synonymous_variant LOW 453C>T Asp151Asp
M0128331 GOKCPGAJ_00001 1130 4 Oral 0.44 protein_coding synonymous_variant LOW 450T>C Ser150Ser
M0128332 GOKCPGAJ_00001 1159 7 Oral 0.78 protein_coding missense_variant MODERATE 421A>G Ile141Val
M0128333 GOKCPGAJ_00002 1636 4 Oral 0.44 protein_coding missense_variant MODERATE 1249C>T Arg417Cys
M0128334 GOKCPGAJ_00002 1643 4 Oral 0.44 protein_coding synonymous_variant LOW 1242G>A Leu414Leu
M0128335 GOKCPGAJ_00002 1676 7 Oral 0.78 protein_coding synonymous_variant LOW 1209C>G Thr403Thr
M0128336 GOKCPGAJ_00002 1847 4 Oral 0.44 protein_coding synonymous_variant LOW 1038T>C Thr346Thr
M0128337 GOKCPGAJ_00002 1901 8 Oral 0.89 protein_coding synonymous_variant LOW 984T>A Pro328Pro
M0128338 GOKCPGAJ_00002 1907 4 Oral 0.44 protein_coding synonymous_variant LOW 978A>T Val326Val
M0128339 GOKCPGAJ_00002 1910 4 Oral 0.44 protein_coding synonymous_variant LOW 975C>T Tyr325Tyr
M0128340 GOKCPGAJ_00002 2048 7 Oral 0.78 protein_coding synonymous_variant LOW 837T>C Phe279Phe
M0128341 GOKCPGAJ_00002 2129 4 Oral 0.44 protein_coding synonymous_variant LOW 756T>G Gly252Gly
M0128342 GOKCPGAJ_00002 2225 9 Oral 1.00 protein_coding synonymous_variant LOW 660C>T Phe220Phe
M0128343 GOKCPGAJ_00002 2240 6 Oral 0.67 protein_coding synonymous_variant LOW 645T>C Asp215Asp
M0128344 GOKCPGAJ_00002 2246 6 Oral 0.67 protein_coding synonymous_variant LOW 639C>T His213His
M0128345 GOKCPGAJ_00002 2258 6 Oral 0.67 protein_coding synonymous_variant LOW 627C>T Ile209Ile
M0128346 GOKCPGAJ_00002 2297 5 Oral 0.56 protein_coding synonymous_variant LOW 588C>T Cys196Cys
M0128347 GOKCPGAJ_00002 2339 8 Oral 0.89 protein_coding synonymous_variant LOW 546T>C Thr182Thr
M0128348 GOKCPGAJ_00002 2351 6 Oral 0.67 protein_coding synonymous_variant LOW 534A>G Gln178Gln
M0128349 GOKCPGAJ_00002 2396 8 Oral 0.89 protein_coding synonymous_variant LOW 489A>G Leu163Leu
M0128350 GOKCPGAJ_00002 2420 9 Oral 1.00 protein_coding synonymous_variant LOW 465A>T Ala155Ala
M0128351 GOKCPGAJ_00002 2438 5 Oral 0.56 protein_coding synonymous_variant LOW 447C>T Tyr149Tyr
M0128352 GOKCPGAJ_00002 2450 9 Oral 1.00 protein_coding synonymous_variant LOW 435T>C Asp145Asp
M0128353 GOKCPGAJ_00002 2453 5 Oral 0.56 protein_coding synonymous_variant LOW 432C>T His144His
M0128354 GOKCPGAJ_00002 2552 8 Oral 0.89 protein_coding synonymous_variant LOW 333A>G Ser111Ser
M0128355 GOKCPGAJ_00002 2651 8 Oral 0.89 protein_coding synonymous_variant LOW 234T>C Gly78Gly
M0128356 GOKCPGAJ_00002 2684 8 Oral 0.89 protein_coding synonymous_variant LOW 201T>C Asp67Asp
M0128357 GOKCPGAJ_00002 2762 6 Oral 0.67 protein_coding synonymous_variant LOW 123G>A Leu41Leu
M0128358 GOKCPGAJ_00002 2772 3 Oral 0.33 protein_coding missense_variant MODERATE 113C>T Thr38Ile
M0128359 GOKCPGAJ_00002 2786 6 Oral 0.67 protein_coding synonymous_variant LOW 99T>C Gly33Gly
M0128360 GOKCPGAJ_00003 2953 8 Oral 0.89 protein_coding synonymous_variant LOW 1890C>T Asn630Asn
M0128361 GOKCPGAJ_00003 4423 6 Oral 0.67 protein_coding synonymous_variant LOW 420T>C His140His
M0128362 GOKCPGAJ_00003 4438 5 Oral 0.56 protein_coding synonymous_variant LOW 405T>C Thr135Thr
M0128363 GOKCPGAJ_00003 4441 3 Oral 0.33 protein_coding synonymous_variant LOW 402C>T Tyr134Tyr
M0128364 GOKCPGAJ_00003 4456 5 Oral 0.56 protein_coding synonymous_variant LOW 387G>A Arg129Arg
M0128365 GOKCPGAJ_00003 4504 3 Oral 0.33 protein_coding synonymous_variant LOW 339T>G Gly113Gly
M0128366 GOKCPGAJ_00003 4567 4 Oral 0.44 protein_coding synonymous_variant LOW 276A>G Lys92Lys
M0128367 GOKCPGAJ_00003 4579 4 Oral 0.44 protein_coding synonymous_variant LOW 264C>T Asn88Asn
M0128368 GOKCPGAJ_00003 4656 6 Oral 0.67 protein_coding synonymous_variant LOW 187C>T Leu63Leu
M0128369 GOKCPGAJ_00001 4901 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3322A>T None
M0128370 GOKCPGAJ_00001 4968 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3389G>A None
M0128371 GOKCPGAJ_00001 4975 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3396C>A None
M0128372 GOKCPGAJ_00001 5006 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3427T>G None
M0128373 GOKCPGAJ_00001 5019 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3440T>C None
M0128374 GOKCPGAJ_00001 5039 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3460G>C None
M0128375 GOKCPGAJ_00001 5071 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3492A>C None
M0128376 GOKCPGAJ_00001 5074 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3495G>C None
M0128377 GOKCPGAJ_00001 5113 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3534G>A None
M0128378 GOKCPGAJ_00001 5138 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3559T>A None
M0128379 GOKCPGAJ_00001 5149 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3570G>T None
M0128380 GOKCPGAJ_00001 5150 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -3571A>G None
M0128381 GOKCPGAJ_00001 863 4 Oral 0.44 protein_coding synonymous_variant LOW 717G>A Leu239Leu
M0128382 GOKCPGAJ_00001 896 3 Oral 0.33 protein_coding synonymous_variant LOW 684T>C Thr228Thr
M0128383 GOKCPGAJ_00001 914 3 Oral 0.33 protein_coding synonymous_variant LOW 666A>G Lys222Lys
M0128384 GOKCPGAJ_00001 938 3 Oral 0.33 protein_coding synonymous_variant LOW 642C>T Asp214Asp
M0128385 GOKCPGAJ_00001 968 3 Oral 0.33 protein_coding synonymous_variant LOW 612C>T Ile204Ile
M0128386 GOKCPGAJ_00001 1205 3 Oral 0.33 protein_coding synonymous_variant LOW 375G>A Lys125Lys
M0128387 GOKCPGAJ_00001 1237 4 Oral 0.44 protein_coding missense_variant MODERATE 343G>A Ala115Thr
M0128388 GOKCPGAJ_00001 1304 3 Oral 0.33 protein_coding synonymous_variant LOW 276A>G Gln92Gln
M0128389 GOKCPGAJ_00001 1385 3 Oral 0.33 protein_coding synonymous_variant LOW 195T>C Phe65Phe
M0128390 GOKCPGAJ_00001 1388 3 Oral 0.33 protein_coding synonymous_variant LOW 192G>A Lys64Lys
M0128391 GOKCPGAJ_00001 1409 3 Oral 0.33 protein_coding synonymous_variant LOW 171A>G Lys57Lys
M0128392 GOKCPGAJ_00001 1424 3 Oral 0.33 protein_coding synonymous_variant LOW 156C>T Leu52Leu
M0128393 GOKCPGAJ_00002 1799 3 Oral 0.33 protein_coding synonymous_variant LOW 1086C>T Asn362Asn
M0128394 GOKCPGAJ_00002 1886 3 Oral 0.33 protein_coding synonymous_variant LOW 999T>C Pro333Pro
M0128395 GOKCPGAJ_00002 2194 3 Oral 0.33 protein_coding missense_variant MODERATE 691G>A Glu231Lys
M0128396 GOKCPGAJ_00002 2222 3 Oral 0.33 protein_coding synonymous_variant LOW 663T>G Thr221Thr
M0128397 GOKCPGAJ_00002 2417 4 Oral 0.44 protein_coding synonymous_variant LOW 468A>G Lys156Lys
M0128398 GOKCPGAJ_00002 2429 4 Oral 0.44 protein_coding synonymous_variant LOW 456C>T Gly152Gly
M0128399 GOKCPGAJ_00002 2561 4 Oral 0.44 protein_coding synonymous_variant LOW 324T>A Ile108Ile
M0128400 GOKCPGAJ_00002 2567 4 Oral 0.44 protein_coding synonymous_variant LOW 318C>T Gly106Gly
M0128401 GOKCPGAJ_00002 2615 4 Oral 0.44 protein_coding synonymous_variant LOW 270C>T Arg90Arg
M0128402 GOKCPGAJ_00002 2672 3 Oral 0.33 protein_coding synonymous_variant LOW 213C>T Asp71Asp
M0128403 GOKCPGAJ_00002 2680 3 Oral 0.33 protein_coding missense_variant MODERATE 205T>G Ser69Ala
M0128404 GOKCPGAJ_00002 2702 4 Oral 0.44 protein_coding synonymous_variant LOW 183A>G Val61Val
M0128405 GOKCPGAJ_00002 2714 3 Oral 0.33 protein_coding synonymous_variant LOW 171C>A Ala57Ala
M0128406 GOKCPGAJ_00002 2809 4 Oral 0.44 protein_coding missense_variant MODERATE 76G>T Ala26Ser
M0128407 GOKCPGAJ_00002 2834 4 Oral 0.44 protein_coding synonymous_variant LOW 51G>A Gly17Gly
M0128408 GOKCPGAJ_00003 2959 3 Oral 0.33 protein_coding synonymous_variant LOW 1884A>T Ala628Ala
M0128409 GOKCPGAJ_00003 3037 3 Oral 0.33 protein_coding synonymous_variant LOW 1806A>C Thr602Thr
M0128410 GOKCPGAJ_00003 3148 3 Oral 0.33 protein_coding synonymous_variant LOW 1695T>A Thr565Thr
M0128411 GOKCPGAJ_00003 3174 3 Oral 0.33 protein_coding synonymous_variant LOW 1669A>C Arg557Arg
M0128412 GOKCPGAJ_00003 3175 3 Oral 0.33 protein_coding synonymous_variant LOW 1668G>A Gln556Gln
M0128413 GOKCPGAJ_00003 3238 4 Oral 0.44 protein_coding synonymous_variant LOW 1605G>T Gly535Gly
M0128414 GOKCPGAJ_00003 3304 4 Oral 0.44 protein_coding synonymous_variant LOW 1539C>A Pro513Pro
M0128415 GOKCPGAJ_00003 3325 4 Oral 0.44 protein_coding synonymous_variant LOW 1518A>T Ala506Ala
M0128416 GOKCPGAJ_00003 3364 3 Oral 0.33 protein_coding synonymous_variant LOW 1479T>C Asn493Asn
M0128417 GOKCPGAJ_00003 3628 3 Oral 0.33 protein_coding synonymous_variant LOW 1215G>T Gly405Gly
M0128418 GOKCPGAJ_00003 3643 3 Oral 0.33 protein_coding synonymous_variant LOW 1200T>C Phe400Phe
M0128419 GOKCPGAJ_00003 3661 3 Oral 0.33 protein_coding synonymous_variant LOW 1182T>C Asn394Asn
M0128420 GOKCPGAJ_00003 3673 3 Oral 0.33 protein_coding synonymous_variant LOW 1170T>C Phe390Phe
M0128421 GOKCPGAJ_00003 3679 3 Oral 0.33 protein_coding synonymous_variant LOW 1164T>A Ile388Ile
M0128422 GOKCPGAJ_00003 3684 3 Oral 0.33 protein_coding missense_variant MODERATE 1159A>C Ile387Leu
M0128423 GOKCPGAJ_00003 3700 3 Oral 0.33 protein_coding synonymous_variant LOW 1143T>G Gly381Gly
M0128424 GOKCPGAJ_00003 3703 3 Oral 0.33 protein_coding synonymous_variant LOW 1140T>C Tyr380Tyr
M0128425 GOKCPGAJ_00003 3711 3 Oral 0.33 protein_coding missense_variant MODERATE 1132A>G Lys378Glu
M0128426 GOKCPGAJ_00003 3730 3 Oral 0.33 protein_coding synonymous_variant LOW 1113G>A Glu371Glu
M0128427 GOKCPGAJ_00003 3918 4 Oral 0.44 protein_coding missense_variant MODERATE 925G>A Val309Ile
M0128428 GOKCPGAJ_00003 3958 3 Oral 0.33 protein_coding synonymous_variant LOW 885G>A Ala295Ala
M0128429 GOKCPGAJ_00003 3973 3 Oral 0.33 protein_coding synonymous_variant LOW 870A>G Glu290Glu
M0128430 GOKCPGAJ_00003 3976 3 Oral 0.33 protein_coding synonymous_variant LOW 867C>T Asp289Asp
M0128431 GOKCPGAJ_00003 3988 3 Oral 0.33 protein_coding synonymous_variant LOW 855C>A Arg285Arg
M0128432 GOKCPGAJ_00003 3991 3 Oral 0.33 protein_coding synonymous_variant LOW 852T>C Asn284Asn
M0128433 GOKCPGAJ_00003 4000 3 Oral 0.33 protein_coding synonymous_variant LOW 843A>G Gln281Gln
M0128434 GOKCPGAJ_00003 4009 3 Oral 0.33 protein_coding synonymous_variant LOW 834T>G Ala278Ala
M0128435 GOKCPGAJ_00003 4027 3 Oral 0.33 protein_coding synonymous_variant LOW 816A>G Leu272Leu
M0128436 GOKCPGAJ_00003 4141 3 Oral 0.33 protein_coding synonymous_variant LOW 702C>A Ile234Ile
M0128437 GOKCPGAJ_00003 4192 3 Oral 0.33 protein_coding synonymous_variant LOW 651C>T Gly217Gly
M0128438 GOKCPGAJ_00003 4285 3 Oral 0.33 protein_coding synonymous_variant LOW 558A>C Pro186Pro
M0128439 GOKCPGAJ_00003 4306 3 Oral 0.33 protein_coding synonymous_variant LOW 537T>C Thr179Thr
M0128440 GOKCPGAJ_00003 4327 3 Oral 0.33 protein_coding synonymous_variant LOW 516A>G Ala172Ala
M0128441 GOKCPGAJ_00003 4330 3 Oral 0.33 protein_coding synonymous_variant LOW 513C>T Phe171Phe
M0128442 GOKCPGAJ_00003 4483 3 Oral 0.33 protein_coding synonymous_variant LOW 360G>A Glu120Glu
M0128443 GOKCPGAJ_00003 4516 3 Oral 0.33 protein_coding synonymous_variant LOW 327G>A Leu109Leu
M0128444 GOKCPGAJ_00003 4518 3 Oral 0.33 protein_coding synonymous_variant LOW 325T>C Leu109Leu
M0128445 GOKCPGAJ_00003 2989 3 Oral 0.33 protein_coding synonymous_variant LOW 1854C>T Pro618Pro
M0128446 GOKCPGAJ_00003 2992 3 Oral 0.33 protein_coding synonymous_variant LOW 1851T>C Pro617Pro






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
GOKCPGAJ_00001 EFC71874.1|GH57 96.1 6.34999999999999e-310 1 437 0.9583 0.9541
GOKCPGAJ_00002 EFC71875.1|GT4 97.9 0 1 419 1 1
GOKCPGAJ_00003 EFC71876.1|GH133 98.5 0 1 647 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