Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1802
  Reference Plasmid   1111525849645395_bin.4__k141_204937
  Reference Plasmid Size   58722
  Reference Plasmid GC Content   0.32
  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
M0016444 GJEOALKK_00017 15040 3 Skin 0.14 protein_coding synonymous_variant LOW 81T>C Asn27Asn
M0016445 GJEOALKK_00017 15064 3 Skin 0.14 protein_coding synonymous_variant LOW 105A>G Thr35Thr
M0016446 GJEOALKK_00017 15416 3 Skin 0.14 protein_coding missense_variant MODERATE 457C>T Pro153Ser
M0016447 GJEOALKK_00018 16312 3 Skin 0.14 protein_coding synonymous_variant LOW 693G>T Leu231Leu
M0016448 GJEOALKK_00018 16396 3 Skin 0.14 protein_coding synonymous_variant LOW 777T>C Ile259Ile
M0016449 GJEOALKK_00018 16763 3 Skin 0.14 protein_coding missense_variant MODERATE 1144G>A Val382Ile
M0016450 GJEOALKK_00018 16948 3 Skin 0.14 protein_coding synonymous_variant LOW 1329A>G Gly443Gly
M0016451 GJEOALKK_00018 16955 3 Skin 0.14 protein_coding missense_variant MODERATE 1336T>G Ser446Ala
M0016452 GJEOALKK_00018 17004 3 Skin 0.14 protein_coding missense_variant MODERATE 1385C>T Ala462Val
M0016453 GJEOALKK_00018 17041 3 Skin 0.14 protein_coding synonymous_variant LOW 1422C>T Ile474Ile
M0016454 GJEOALKK_00018 17236 3 Skin 0.14 protein_coding synonymous_variant LOW 1617T>C His539His
M0016455 GJEOALKK_00019 17969 3 Skin 0.14 protein_coding missense_variant MODERATE 373G>A Val125Met
M0016456 GJEOALKK_00019 18235 3 Skin 0.14 protein_coding missense_variant MODERATE 107C>T Thr36Ile
M0016457 GJEOALKK_00019 18250 3 Skin 0.14 protein_coding missense_variant MODERATE 92G>A Arg31His
M0016458 GJEOALKK_00016 18565 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -3745C>T None
M0016459 GJEOALKK_00016 19574 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4754A>G None
M0016460 GJEOALKK_00016 19606 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4786A>G None
M0016461 GJEOALKK_00016 19609 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4789A>G None
M0016462 GJEOALKK_00016 19628 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4808A>G None
M0016463 GJEOALKK_00021 19721 3 Skin 0.14 protein_coding missense_variant MODERATE 262T>A Phe88Ile
M0016464 GJEOALKK_00021 19747 3 Skin 0.14 protein_coding missense_variant MODERATE 236G>A Arg79His
M0016465 GJEOALKK_00021 19823 3 Skin 0.14 protein_coding missense_variant MODERATE 160A>G Lys54Glu
M0016466 GJEOALKK_00021 19832 3 Skin 0.14 protein_coding missense_variant MODERATE 151G>A Glu51Lys
M0016467 GJEOALKK_00019 22652 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4311A>G None
M0016468 GJEOALKK_00019 22655 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4314C>T None
M0016469 GJEOALKK_00019 22657 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4316G>A None
M0016470 GJEOALKK_00019 22675 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4334A>G None
M0016471 GJEOALKK_00025 22760 3 Skin 0.14 protein_coding missense_variant MODERATE 320A>T Asp107Val
M0016472 GJEOALKK_00025 22772 3 Skin 0.14 protein_coding missense_variant MODERATE 308C>T Thr103Met
M0016473 GJEOALKK_00025 22784 3 Skin 0.14 protein_coding missense_variant MODERATE 296C>T Thr99Met
M0016474 GJEOALKK_00025 22819 3 Skin 0.14 protein_coding missense_variant MODERATE 261G>A Met87Ile
M0016475 GJEOALKK_00025 22981 4 Skin 0.19 protein_coding synonymous_variant LOW 99A>T Gly33Gly
M0016476 GJEOALKK_00025 22986 4 Skin 0.19 protein_coding synonymous_variant LOW 94T>C Leu32Leu
M0016477 GJEOALKK_00025 23036 4 Skin 0.19 protein_coding missense_variant MODERATE 44G>A Gly15Asp
M0016478 GJEOALKK_00025 23049 4 Skin 0.19 protein_coding missense_variant MODERATE 31C>T Pro11Ser
M0016479 GJEOALKK_00025 23057 4 Skin 0.19 protein_coding missense_variant MODERATE 23A>G His8Arg
M0016480 GJEOALKK_00025 23073 4 Skin 0.19 protein_coding missense_variant MODERATE 7A>G Ile3Val
M0016481 GJEOALKK_00026 23088 4 Skin 0.19 protein_coding synonymous_variant LOW 756C>T Tyr252Tyr
M0016482 GJEOALKK_00026 23096 4 Skin 0.19 protein_coding missense_variant MODERATE 748G>C Ala250Pro
M0016483 GJEOALKK_00026 23155 4 Skin 0.19 protein_coding missense_variant MODERATE 689G>T Cys230Phe
M0016484 GJEOALKK_00026 23180 4 Skin 0.19 protein_coding missense_variant MODERATE 664A>T Ile222Leu
M0016485 GJEOALKK_00026 23366 4 Skin 0.19 protein_coding missense_variant MODERATE 478C>G Pro160Ala
M0016486 GJEOALKK_00026 23454 3 Skin 0.14 protein_coding synonymous_variant LOW 390A>G Ala130Ala
M0016487 GJEOALKK_00026 23537 3 Skin 0.14 protein_coding missense_variant MODERATE 307G>T Gly103Cys
M0016488 GJEOALKK_00026 23828 3 Skin 0.14 protein_coding missense_variant MODERATE 16T>G Ser6Ala
M0016489 GJEOALKK_00021 23852 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -3870G>A None
M0016490 GJEOALKK_00021 23875 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -3893A>T None
M0016491 GJEOALKK_00021 23910 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -3928G>A None
M0016492 GJEOALKK_00021 23926 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -3944A>G None
M0016493 GJEOALKK_00021 23983 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -4001T>G None
M0016494 GJEOALKK_00021 24130 4 Skin 0.19 protein_coding upstream_gene_variant MODIFIER -4148G>T None
M0016495 GJEOALKK_00021 24143 4 Skin 0.19 protein_coding upstream_gene_variant MODIFIER -4161T>C None
M0016496 GJEOALKK_00027 24163 4 Skin 0.19 protein_coding missense_variant MODERATE 7G>A Ala3Thr
M0016497 GJEOALKK_00027 24180 3 Skin 0.14 protein_coding synonymous_variant LOW 24G>T Gly8Gly
M0016498 GJEOALKK_00027 24222 3 Skin 0.14 protein_coding synonymous_variant LOW 66T>C Asp22Asp
M0016499 GJEOALKK_00027 24340 3 Skin 0.14 protein_coding missense_variant MODERATE 184C>T Pro62Ser
M0016500 GJEOALKK_00027 24375 3 Skin 0.14 protein_coding synonymous_variant LOW 219G>A Gln73Gln
M0016501 GJEOALKK_00028 24536 4 Skin 0.19 protein_coding synonymous_variant LOW 64C>A Arg22Arg
M0016502 GJEOALKK_00028 24537 4 Skin 0.19 protein_coding missense_variant MODERATE 65G>T Arg22Leu
M0016503 GJEOALKK_00028 24717 3 Skin 0.14 protein_coding missense_variant MODERATE 245T>G Ile82Ser
M0016504 GJEOALKK_00028 24726 3 Skin 0.14 protein_coding missense_variant MODERATE 254T>C Val85Ala
M0016505 GJEOALKK_00028 24772 3 Skin 0.14 protein_coding synonymous_variant LOW 300A>T Ala100Ala
M0016506 GJEOALKK_00028 24790 3 Skin 0.14 protein_coding synonymous_variant LOW 318A>T Val106Val
M0016507 GJEOALKK_00028 24794 3 Skin 0.14 protein_coding missense_variant MODERATE 322C>T Leu108Phe
M0016508 GJEOALKK_00028 24855 3 Skin 0.14 protein_coding missense_variant MODERATE 383T>G Val128Gly
M0016509 GJEOALKK_00028 24911 3 Skin 0.14 protein_coding missense_variant MODERATE 439A>C Met147Leu
M0016510 GJEOALKK_00028 25004 3 Skin 0.14 protein_coding missense_variant MODERATE 532A>G Thr178Ala
M0016511 GJEOALKK_00028 25010 3 Skin 0.14 protein_coding missense_variant MODERATE 538A>G Ile180Val
M0016512 GJEOALKK_00029 25158 3 Skin 0.14 protein_coding synonymous_variant LOW 141C>T Thr47Thr
M0016513 GJEOALKK_00029 25161 3 Skin 0.14 protein_coding synonymous_variant LOW 144T>C Tyr48Tyr
M0016514 GJEOALKK_00029 25239 3 Skin 0.14 protein_coding synonymous_variant LOW 222C>T Ile74Ile
M0016515 GJEOALKK_00029 25288 3 Skin 0.14 protein_coding missense_variant MODERATE 271C>T His91Tyr
M0016516 GJEOALKK_00029 25294 3 Skin 0.14 protein_coding stop_gained HIGH 277C>T Gln93*
M0016517 GJEOALKK_00029 25365 3 Skin 0.14 protein_coding synonymous_variant LOW 348C>T His116His
M0016518 GJEOALKK_00029 25369 3 Skin 0.14 protein_coding missense_variant MODERATE 352A>G Ile118Val
M0016519 GJEOALKK_00029 25384 3 Skin 0.14 protein_coding missense_variant MODERATE 367C>A Gln123Lys
M0016520 GJEOALKK_00029 25409 3 Skin 0.14 protein_coding missense_variant MODERATE 392C>T Pro131Leu
M0016521 GJEOALKK_00025 25436 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2357C>T None
M0016522 GJEOALKK_00025 25465 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2386G>A None
M0016523 GJEOALKK_00025 25466 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2387T>C None
M0016524 GJEOALKK_00025 25473 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2394T>C None
M0016525 GJEOALKK_00025 25502 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2423G>T None
M0016526 GJEOALKK_00025 25665 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2586T>C None
M0016527 GJEOALKK_00025 25684 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2605A>G None
M0016528 GJEOALKK_00025 25694 3 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2615A>G None
M0016529 GJEOALKK_00030 25947 3 Skin 0.14 protein_coding synonymous_variant LOW 535T>C Leu179Leu
M0016530 GJEOALKK_00030 25990 3 Skin 0.14 protein_coding synonymous_variant LOW 492T>C Gly164Gly
M0016531 GJEOALKK_00030 25998 3 Skin 0.14 protein_coding missense_variant MODERATE 484G>A Glu162Lys
M0016532 GJEOALKK_00030 26021 3 Skin 0.14 protein_coding missense_variant MODERATE 461G>A Arg154His
M0016533 GJEOALKK_00030 26035 3 Skin 0.14 protein_coding synonymous_variant LOW 447C>T Ile149Ile
M0016534 GJEOALKK_00030 26052 3 Skin 0.14 protein_coding missense_variant MODERATE 430G>A Asp144Asn
M0016535 GJEOALKK_00030 26060 3 Skin 0.14 protein_coding missense_variant MODERATE 422T>C Met141Thr
M0016536 GJEOALKK_00030 26274 3 Skin 0.14 protein_coding missense_variant MODERATE 208A>G Thr70Ala
M0016537 GJEOALKK_00030 26293 3 Skin 0.14 protein_coding synonymous_variant LOW 189A>G Ser63Ser
M0016538 GJEOALKK_00030 26397 3 Skin 0.14 protein_coding missense_variant MODERATE 85C>T Leu29Phe
M0016539 GJEOALKK_00012 12720 3 Skin 0.14 protein_coding missense_variant MODERATE 1190T>A Ile397Asn
M0016540 GJEOALKK_00012 12746 3 Skin 0.14 protein_coding missense_variant MODERATE 1216A>G Thr406Ala
M0016541 GJEOALKK_00012 12753 3 Skin 0.14 protein_coding missense_variant MODERATE 1223A>G His408Arg
M0016542 GJEOALKK_00012 12766 3 Skin 0.14 protein_coding synonymous_variant LOW 1236T>C Asp412Asp
M0016543 GJEOALKK_00012 12841 3 Skin 0.14 protein_coding synonymous_variant LOW 1311C>T Ser437Ser
M0016544 GJEOALKK_00015 14061 3 Skin 0.14 protein_coding missense_variant MODERATE 80C>T Ser27Phe
M0016545 GJEOALKK_00015 14089 3 Skin 0.14 protein_coding synonymous_variant LOW 108A>G Thr36Thr
M0016546 GJEOALKK_00015 14093 3 Skin 0.14 protein_coding missense_variant MODERATE 112T>C Ser38Pro
M0016547 GJEOALKK_00015 14107 3 Skin 0.14 protein_coding synonymous_variant LOW 126T>C Ile42Ile
M0016548 GJEOALKK_00015 14113 3 Skin 0.14 protein_coding synonymous_variant LOW 132C>T Ile44Ile
M0016549 GJEOALKK_00015 14135 3 Skin 0.14 protein_coding missense_variant MODERATE 154C>T Leu52Phe
M0016550 GJEOALKK_00016 14319 3 Skin 0.14 protein_coding missense_variant MODERATE 502A>G Lys168Glu
M0016551 GJEOALKK_00016 14447 3 Skin 0.14 protein_coding missense_variant MODERATE 374A>G Tyr125Cys
M0016552 GJEOALKK_00016 14607 3 Skin 0.14 protein_coding missense_variant MODERATE 214C>A His72Asn
M0016553 GJEOALKK_00016 14646 3 Skin 0.14 protein_coding missense_variant MODERATE 175C>T His59Tyr
M0016554 GJEOALKK_00016 14741 3 Skin 0.14 protein_coding missense_variant MODERATE 80C>T Thr27Ile
M0016555 GJEOALKK_00028 24734 3 Skin 0.14 protein_coding missense_variant MODERATE 262T>G Leu88Val






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
GJEOALKK_00003 PHI:6190 Mqo 73.8 5.7e-103 1 244 0.9919 1.0000 rodents skin infection; food poisoning; respiratory disease malate-quinone oxidoreductases reduced virulence
GJEOALKK_00004 PHI:6190 Mqo 83.5 2.6e-122 11 259 0.9614 1.0000 rodents skin infection; food poisoning; respiratory disease malate-quinone oxidoreductases reduced virulence
GJEOALKK_00066 PHI:6876 rpiRC 72.1 4.2e-121 4 293 0.9898 1.0000 rodents pneumonia effector protein effector (plant avirulence determinant)






        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
GJEOALKK_00002 QQB98787.1|GT4 99.7 1.68e-271 1 381 1 1
GJEOALKK_00069 QRJ67035.1|GH170 100 2.53e-262 1 355 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
GJEOALKK_00008 3.A.1.122.4 73.5 1.1e-84 1 219 0.9865 0.9910 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
GJEOALKK_00051 2.A.35.1.9 88.1 6.3e-206 1 430 1.0000 0.9368 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.35 The NhaC Na+:H+ Antiporter (NhaC) Family