Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2748
  Reference Plasmid   1111525849862021_bin.14__k141_8810
  Reference Plasmid Size   12332
  Reference Plasmid GC Content   0.64
  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
M0054426 JFJDLMGP_00001 729 3 Skin 0.07 protein_coding missense_variant MODERATE 724C>T Pro242Ser
M0054427 JFJDLMGP_00001 730 3 Skin 0.07 protein_coding missense_variant MODERATE 725C>G Pro242Arg
M0054428 JFJDLMGP_00001 851 3 Skin 0.07 protein_coding synonymous_variant LOW 846T>C Ala282Ala
M0054429 JFJDLMGP_00002 1276 18 Skin 0.44 protein_coding synonymous_variant LOW 408C>T Arg136Arg
M0054430 JFJDLMGP_00002 1339 16 Skin 0.39 protein_coding synonymous_variant LOW 471A>C Val157Val
M0054431 JFJDLMGP_00002 1342 16 Skin 0.39 protein_coding synonymous_variant LOW 474C>T Arg158Arg
M0054432 JFJDLMGP_00002 1388 17 Skin 0.41 protein_coding missense_variant MODERATE 520G>A Asp174Asn
M0054433 JFJDLMGP_00002 1403 17 Skin 0.41 protein_coding missense_variant MODERATE 535G>A Val179Ile
M0054434 JFJDLMGP_00002 1456 13 Skin 0.32 protein_coding synonymous_variant LOW 588G>A Val196Val
M0054435 JFJDLMGP_00002 1492 12 Skin 0.29 protein_coding synonymous_variant LOW 624G>A Ala208Ala
M0054436 JFJDLMGP_00002 1657 9 Skin 0.22 protein_coding synonymous_variant LOW 789C>G Val263Val
M0054437 JFJDLMGP_00003 2053 13 Skin 0.32 protein_coding synonymous_variant LOW 1563T>C Gly521Gly
M0054438 JFJDLMGP_00003 2446 5 Skin 0.12 protein_coding synonymous_variant LOW 1170C>T Asp390Asp
M0054439 JFJDLMGP_00003 2782 9 Skin 0.22 protein_coding synonymous_variant LOW 834C>T Gly278Gly
M0054440 JFJDLMGP_00003 3304 11 Skin 0.27 protein_coding synonymous_variant LOW 312G>C Ser104Ser
M0054441 JFJDLMGP_00004 4059 7 Skin 0.17 protein_coding synonymous_variant LOW 165T>C Asn55Asn
M0054442 JFJDLMGP_00004 4308 9 Skin 0.22 protein_coding synonymous_variant LOW 414C>T Arg138Arg
M0054443 JFJDLMGP_00004 4311 9 Skin 0.22 protein_coding synonymous_variant LOW 417A>G Glu139Glu
M0054444 JFJDLMGP_00004 4347 10 Skin 0.24 protein_coding synonymous_variant LOW 453C>T Gly151Gly
M0054445 JFJDLMGP_00004 4350 10 Skin 0.24 protein_coding synonymous_variant LOW 456G>A Glu152Glu
M0054446 JFJDLMGP_00004 4548 14 Skin 0.34 protein_coding synonymous_variant LOW 654C>T Asp218Asp
M0054447 JFJDLMGP_00004 4584 16 Skin 0.39 protein_coding synonymous_variant LOW 690C>T Asp230Asp
M0054448 JFJDLMGP_00004 4767 19 Skin 0.46 protein_coding synonymous_variant LOW 873C>T Thr291Thr
M0054449 JFJDLMGP_00004 4853 22 Skin 0.54 protein_coding missense_variant MODERATE 959A>C Asp320Ala
M0054450 JFJDLMGP_00004 4889 22 Skin 0.54 protein_coding missense_variant MODERATE 995A>C Glu332Ala
M0054451 JFJDLMGP_00005 5737 10 Skin 0.24 protein_coding synonymous_variant LOW 333T>C Asp111Asp
M0054452 JFJDLMGP_00005 6000 11 Skin 0.27 protein_coding synonymous_variant LOW 70C>T Leu24Leu
M0054453 JFJDLMGP_00006 6323 23 Skin 0.56 protein_coding synonymous_variant LOW 540T>C Pro180Pro
M0054454 JFJDLMGP_00006 6632 25 Skin 0.61 protein_coding synonymous_variant LOW 231G>A Val77Val
M0054455 JFJDLMGP_00007 7147 16 Skin 0.39 protein_coding synonymous_variant LOW 708A>G Glu236Glu
M0054456 JFJDLMGP_00007 7150 16 Skin 0.39 protein_coding synonymous_variant LOW 705A>G Ala235Ala
M0054457 JFJDLMGP_00007 7369 7 Skin 0.17 protein_coding synonymous_variant LOW 486A>T Val162Val
M0054458 JFJDLMGP_00007 7447 13 Skin 0.32 protein_coding missense_variant MODERATE 408T>G Ile136Met
M0054459 JFJDLMGP_00007 7508 40 Skin 0.98 protein_coding missense_variant MODERATE 347C>A Ala116Asp
M0054460 JFJDLMGP_00007 7510 13 Skin 0.32 protein_coding synonymous_variant LOW 345C>T Tyr115Tyr
M0054461 JFJDLMGP_00007 7535 40 Skin 0.98 protein_coding missense_variant MODERATE 320T>C Val107Ala
M0054462 JFJDLMGP_00007 7585 14 Skin 0.34 protein_coding synonymous_variant LOW 270T>C Asp90Asp
M0054463 JFJDLMGP_00003 8362 30 Skin 0.73 protein_coding upstream_gene_variant MODIFIER -4747C>G None
M0054464 JFJDLMGP_00009 8817 28 Skin 0.68 protein_coding missense_variant MODERATE 216C>G Asp72Glu
M0054465 JFJDLMGP_00009 8949 16 Skin 0.39 protein_coding synonymous_variant LOW 348G>C Ala116Ala
M0054466 JFJDLMGP_00010 10941 4 Skin 0.10 protein_coding missense_variant MODERATE 311A>C Asn104Thr
M0054467 JFJDLMGP_00010 10951 8 Skin 0.20 protein_coding missense_variant MODERATE 321G>T Glu107Asp
M0054468 JFJDLMGP_00010 10955 7 Skin 0.17 protein_coding synonymous_variant LOW 325A>C Arg109Arg
M0054469 JFJDLMGP_00010 11035 8 Skin 0.20 protein_coding synonymous_variant LOW 405G>A Leu135Leu
M0054470 JFJDLMGP_00010 11188 8 Skin 0.20 protein_coding synonymous_variant LOW 558A>G Ala186Ala
M0054471 JFJDLMGP_00010 11194 10 Skin 0.24 protein_coding synonymous_variant LOW 564A>C Ala188Ala
M0054472 JFJDLMGP_00006 11363 8 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -4501G>T None
M0054473 JFJDLMGP_00006 11392 10 Skin 0.24 protein_coding upstream_gene_variant MODIFIER -4530G>A None
M0054474 JFJDLMGP_00006 11449 8 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -4587T>C None
M0054475 JFJDLMGP_00006 11460 8 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -4598A>G None
M0054476 JFJDLMGP_00006 11596 7 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4734A>C None
M0054477 JFJDLMGP_00006 11598 7 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4736T>C None
M0054478 JFJDLMGP_00006 11620 7 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4758T>A None
M0054479 JFJDLMGP_00006 11712 7 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4850G>C None
M0054480 JFJDLMGP_00006 11804 8 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -4942T>G None
M0054481 JFJDLMGP_00006 11828 8 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -4966T>C None
M0054482 JFJDLMGP_00007 12206 7 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4352C>G None
M0054483 JFJDLMGP_00001 361 6 Skin 0.15 protein_coding missense_variant MODERATE 356T>A Leu119His
M0054484 JFJDLMGP_00001 416 8 Skin 0.20 protein_coding synonymous_variant LOW 411T>C Asp137Asp
M0054485 JFJDLMGP_00001 421 7 Skin 0.17 protein_coding missense_variant MODERATE 416G>C Gly139Ala
M0054486 JFJDLMGP_00002 1024 4 Skin 0.10 protein_coding synonymous_variant LOW 156T>A Ala52Ala
M0054487 JFJDLMGP_00003 2140 9 Skin 0.22 protein_coding synonymous_variant LOW 1476G>T Leu492Leu
M0054488 JFJDLMGP_00003 2536 15 Skin 0.37 protein_coding synonymous_variant LOW 1080T>C Thr360Thr
M0054489 JFJDLMGP_00003 3441 14 Skin 0.34 protein_coding synonymous_variant LOW 175C>T Leu59Leu
M0054490 JFJDLMGP_00004 4281 13 Skin 0.32 protein_coding synonymous_variant LOW 387C>G Gly129Gly
M0054491 JFJDLMGP_00004 4407 12 Skin 0.29 protein_coding synonymous_variant LOW 513A>C Ala171Ala
M0054492 JFJDLMGP_00004 5006 19 Skin 0.46 protein_coding missense_variant MODERATE 1112G>A Ser371Asn
M0054493 JFJDLMGP_00004 5010 19 Skin 0.46 protein_coding synonymous_variant LOW 1116A>G Glu372Glu
M0054494 JFJDLMGP_00004 5022 20 Skin 0.49 protein_coding synonymous_variant LOW 1128T>C Asp376Asp
M0054495 JFJDLMGP_00003 5137 16 Skin 0.39 protein_coding upstream_gene_variant MODIFIER -1522A>G None
M0054496 JFJDLMGP_00005 5930 10 Skin 0.24 protein_coding missense_variant MODERATE 140G>A Ser47Asn
M0054497 JFJDLMGP_00007 7293 10 Skin 0.24 protein_coding synonymous_variant LOW 562C>T Leu188Leu
M0054498 JFJDLMGP_00009 10167 22 Skin 0.54 protein_coding synonymous_variant LOW 1566T>G Leu522Leu
M0054499 JFJDLMGP_00009 10185 23 Skin 0.56 protein_coding synonymous_variant LOW 1584A>G Ala528Ala
M0054500 JFJDLMGP_00009 10341 22 Skin 0.54 protein_coding synonymous_variant LOW 1740A>G Val580Val
M0054501 JFJDLMGP_00009 10344 23 Skin 0.56 protein_coding synonymous_variant LOW 1743C>G Thr581Thr
M0054502 JFJDLMGP_00009 10359 22 Skin 0.54 protein_coding synonymous_variant LOW 1758C>T Gly586Gly
M0054503 JFJDLMGP_00009 10368 22 Skin 0.54 protein_coding synonymous_variant LOW 1767C>G Pro589Pro
M0054504 JFJDLMGP_00009 10371 23 Skin 0.56 protein_coding synonymous_variant LOW 1770A>G Leu590Leu
M0054505 JFJDLMGP_00009 10380 22 Skin 0.54 protein_coding synonymous_variant LOW 1779T>C Gly593Gly
M0054506 JFJDLMGP_00009 10392 22 Skin 0.54 protein_coding synonymous_variant LOW 1791G>A Val597Val
M0054507 JFJDLMGP_00009 10410 21 Skin 0.51 protein_coding synonymous_variant LOW 1809C>T Ala603Ala
M0054508 JFJDLMGP_00009 10416 21 Skin 0.51 protein_coding synonymous_variant LOW 1815C>T Gly605Gly
M0054509 JFJDLMGP_00009 10419 21 Skin 0.51 protein_coding synonymous_variant LOW 1818C>T Gly606Gly
M0054510 JFJDLMGP_00009 10437 21 Skin 0.51 protein_coding synonymous_variant LOW 1836G>A Lys612Lys
M0054511 JFJDLMGP_00009 10467 21 Skin 0.51 protein_coding synonymous_variant LOW 1866A>G Lys622Lys
M0054512 JFJDLMGP_00005 10476 21 Skin 0.51 protein_coding upstream_gene_variant MODIFIER -4407C>G None
M0054513 JFJDLMGP_00005 10508 22 Skin 0.54 protein_coding upstream_gene_variant MODIFIER -4439A>T None
M0054514 JFJDLMGP_00005 10519 24 Skin 0.59 protein_coding upstream_gene_variant MODIFIER -4450T>C None
M0054515 JFJDLMGP_00005 10574 22 Skin 0.54 protein_coding upstream_gene_variant MODIFIER -4505A>G None
M0054516 JFJDLMGP_00004 4482 15 Skin 0.37 protein_coding synonymous_variant LOW 588G>A Lys196Lys
M0054517 JFJDLMGP_00004 4512 15 Skin 0.37 protein_coding missense_variant MODERATE 618A>C Glu206Asp
M0054518 JFJDLMGP_00004 4521 15 Skin 0.37 protein_coding synonymous_variant LOW 627G>A Ala209Ala
M0054519 JFJDLMGP_00005 5603 11 Skin 0.27 protein_coding missense_variant MODERATE 467T>C Met156Thr
M0054520 JFJDLMGP_00007 7403 8 Skin 0.20 protein_coding missense_variant MODERATE 452A>T Asp151Val
M0054521 JFJDLMGP_00007 7675 11 Skin 0.27 protein_coding synonymous_variant LOW 180C>T Val60Val
M0054522 JFJDLMGP_00007 7681 11 Skin 0.27 protein_coding synonymous_variant LOW 174C>T Arg58Arg
M0054523 JFJDLMGP_00008 8088 16 Skin 0.39 protein_coding synonymous_variant LOW 204C>G Ala68Ala
M0054524 JFJDLMGP_00006 11858 7 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -4996G>A None
M0054525 JFJDLMGP_00007 11994 4 Skin 0.10 protein_coding upstream_gene_variant MODIFIER -4140G>C None
M0054526 JFJDLMGP_00007 12137 4 Skin 0.10 protein_coding upstream_gene_variant MODIFIER -4283A>G None
M0054527 JFJDLMGP_00007 7235 7 Skin 0.17 protein_coding missense_variant MODERATE 620A>G Glu207Gly
M0054528 JFJDLMGP_00007 7759 16 Skin 0.39 protein_coding synonymous_variant LOW 96T>C Ile32Ile
M0054529 JFJDLMGP_00007 7796 14 Skin 0.34 protein_coding missense_variant MODERATE 59A>G Gln20Arg
M0054530 JFJDLMGP_00009 9252 11 Skin 0.27 protein_coding synonymous_variant LOW 651T>C Val217Val
M0054531 JFJDLMGP_00003 2512 11 Skin 0.27 protein_coding synonymous_variant LOW 1104C>T Phe368Phe
M0054532 JFJDLMGP_00004 3922 15 Skin 0.37 protein_coding missense_variant MODERATE 28C>A Leu10Ile
M0054533 JFJDLMGP_00004 3930 15 Skin 0.37 protein_coding synonymous_variant LOW 36C>T Leu12Leu
M0054534 JFJDLMGP_00004 4233 13 Skin 0.32 protein_coding synonymous_variant LOW 339G>A Leu113Leu
M0054535 JFJDLMGP_00010 10666 22 Skin 0.54 protein_coding synonymous_variant LOW 36C>G Ala12Ala
M0054536 JFJDLMGP_00010 10681 21 Skin 0.51 protein_coding synonymous_variant LOW 51C>T Ala17Ala
M0054537 JFJDLMGP_00010 11108 5 Skin 0.12 protein_coding synonymous_variant LOW 478C>T Leu160Leu
M0054538 JFJDLMGP_00002 1714 5 Skin 0.12 protein_coding synonymous_variant LOW 846G>C Thr282Thr
M0054539 JFJDLMGP_00002 1722 5 Skin 0.12 protein_coding missense_variant MODERATE 854T>C Ile285Thr
M0054540 JFJDLMGP_00003 1987 8 Skin 0.20 protein_coding synonymous_variant LOW 1629T>C Asp543Asp
M0054541 JFJDLMGP_00003 3205 9 Skin 0.22 protein_coding synonymous_variant LOW 411T>C Arg137Arg
M0054542 JFJDLMGP_00005 5414 8 Skin 0.20 protein_coding missense_variant MODERATE 656C>T Thr219Ile
M0054543 JFJDLMGP_00005 5436 10 Skin 0.24 protein_coding missense_variant MODERATE 634A>G Ile212Val
M0054544 JFJDLMGP_00003 1858 7 Skin 0.17 protein_coding synonymous_variant LOW 1758T>C Asp586Asp
M0054545 JFJDLMGP_00005 5491 8 Skin 0.20 protein_coding synonymous_variant LOW 579C>T Gly193Gly
M0054546 JFJDLMGP_00005 5509 8 Skin 0.20 protein_coding synonymous_variant LOW 561G>A Thr187Thr
M0054547 JFJDLMGP_00005 5653 8 Skin 0.20 protein_coding synonymous_variant LOW 417C>T Val139Val
M0054548 JFJDLMGP_00005 5352 5 Skin 0.12 protein_coding missense_variant MODERATE 718G>A Ala240Thr
M0054549 JFJDLMGP_00002 1107 8 Skin 0.20 protein_coding missense_variant MODERATE 239A>C Asp80Ala
M0054550 JFJDLMGP_00003 3160 3 Skin 0.07 protein_coding synonymous_variant LOW 456C>T Asp152Asp
M0054551 JFJDLMGP_00001 241 5 Skin 0.12 protein_coding missense_variant MODERATE 236C>A Pro79Gln
M0054552 JFJDLMGP_00004 1795 5 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -2100T>C None
M0054553 JFJDLMGP_00004 1806 5 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -2089T>C None
M0054554 JFJDLMGP_00003 2863 3 Skin 0.07 protein_coding synonymous_variant LOW 753G>C Pro251Pro
M0054555 JFJDLMGP_00006 6488 3 Skin 0.07 protein_coding synonymous_variant LOW 375T>G Gly125Gly






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