Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3000
  Reference Plasmid   DSKIN0033-1_bin.10__k141_53072
  Reference Plasmid Size   29309
  Reference Plasmid GC Content   0.67
  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
M0069506 JCOBNCBN_00003 2828 3 Skin 0.20 protein_coding missense_variant MODERATE 1148T>C Val383Ala
M0069507 JCOBNCBN_00003 3397 3 Skin 0.20 protein_coding synonymous_variant LOW 579C>A Gly193Gly
M0069508 JCOBNCBN_00003 3430 3 Skin 0.20 protein_coding synonymous_variant LOW 546C>G Ala182Ala
M0069509 JCOBNCBN_00003 3466 3 Skin 0.20 protein_coding synonymous_variant LOW 510C>G Ala170Ala
M0069510 JCOBNCBN_00003 3469 3 Skin 0.20 protein_coding synonymous_variant LOW 507A>C Thr169Thr
M0069511 JCOBNCBN_00003 3486 3 Skin 0.20 protein_coding missense_variant MODERATE 490A>G Ser164Gly
M0069512 JCOBNCBN_00003 3502 3 Skin 0.20 protein_coding synonymous_variant LOW 474C>G Gly158Gly
M0069513 JCOBNCBN_00003 3505 3 Skin 0.20 protein_coding synonymous_variant LOW 471A>C Ala157Ala
M0069514 JCOBNCBN_00004 4209 4 Skin 0.27 protein_coding synonymous_variant LOW 1170A>G Gln390Gln
M0069515 JCOBNCBN_00004 4257 4 Skin 0.27 protein_coding synonymous_variant LOW 1122G>C Thr374Thr
M0069516 JCOBNCBN_00004 4263 4 Skin 0.27 protein_coding missense_variant MODERATE 1116G>C Glu372Asp
M0069517 JCOBNCBN_00004 4265 4 Skin 0.27 protein_coding missense_variant MODERATE 1114G>A Glu372Lys
M0069518 JCOBNCBN_00004 4269 4 Skin 0.27 protein_coding synonymous_variant LOW 1110T>C Asp370Asp
M0069519 JCOBNCBN_00005 6030 4 Skin 0.27 protein_coding missense_variant MODERATE 432C>G Phe144Leu
M0069520 JCOBNCBN_00006 6868 3 Skin 0.20 protein_coding synonymous_variant LOW 654A>G Gln218Gln
M0069521 JCOBNCBN_00006 6900 3 Skin 0.20 protein_coding synonymous_variant LOW 622C>T Leu208Leu
M0069522 JCOBNCBN_00007 7796 4 Skin 0.27 protein_coding synonymous_variant LOW 348G>T Gly116Gly
M0069523 JCOBNCBN_00007 8023 7 Skin 0.47 protein_coding synonymous_variant LOW 121T>C Leu41Leu
M0069524 JCOBNCBN_00007 8027 7 Skin 0.47 protein_coding synonymous_variant LOW 117G>T Leu39Leu
M0069525 JCOBNCBN_00008 8792 5 Skin 0.33 protein_coding synonymous_variant LOW 345G>T Ala115Ala
M0069526 JCOBNCBN_00009 9328 3 Skin 0.20 protein_coding missense_variant MODERATE 546A>C Glu182Asp
M0069527 JCOBNCBN_00009 9329 3 Skin 0.20 protein_coding missense_variant MODERATE 545A>G Glu182Gly
M0069528 JCOBNCBN_00010 10349 3 Skin 0.20 protein_coding synonymous_variant LOW 180G>A Glu60Glu
M0069529 JCOBNCBN_00010 10457 3 Skin 0.20 protein_coding synonymous_variant LOW 288T>C Asp96Asp
M0069530 JCOBNCBN_00010 11033 5 Skin 0.33 protein_coding synonymous_variant LOW 864G>C Leu288Leu
M0069531 JCOBNCBN_00010 11039 5 Skin 0.33 protein_coding synonymous_variant LOW 870C>G Leu290Leu
M0069532 JCOBNCBN_00010 11312 4 Skin 0.27 protein_coding synonymous_variant LOW 1143A>G Ser381Ser
M0069533 JCOBNCBN_00010 11845 5 Skin 0.33 protein_coding missense_variant MODERATE 1676G>A Ser559Asn
M0069534 JCOBNCBN_00011 12172 4 Skin 0.27 protein_coding synonymous_variant LOW 939C>T Gly313Gly
M0069535 JCOBNCBN_00011 12220 5 Skin 0.33 protein_coding synonymous_variant LOW 891C>G Pro297Pro
M0069536 JCOBNCBN_00011 12250 4 Skin 0.27 protein_coding synonymous_variant LOW 861C>T Asp287Asp
M0069537 JCOBNCBN_00011 12526 4 Skin 0.27 protein_coding synonymous_variant LOW 585A>G Lys195Lys
M0069538 JCOBNCBN_00011 12655 3 Skin 0.20 protein_coding synonymous_variant LOW 456C>G Ala152Ala
M0069539 JCOBNCBN_00011 12658 3 Skin 0.20 protein_coding synonymous_variant LOW 453T>C Arg151Arg
M0069540 JCOBNCBN_00007 13115 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4972A>C None
M0069541 JCOBNCBN_00012 13578 3 Skin 0.20 protein_coding synonymous_variant LOW 249C>T Val83Val
M0069542 JCOBNCBN_00012 13611 3 Skin 0.20 protein_coding synonymous_variant LOW 282A>G Glu94Glu
M0069543 JCOBNCBN_00012 14064 3 Skin 0.20 protein_coding synonymous_variant LOW 735C>A Gly245Gly
M0069544 JCOBNCBN_00012 14180 4 Skin 0.27 protein_coding missense_variant MODERATE 851A>G Asn284Ser
M0069545 JCOBNCBN_00012 14385 4 Skin 0.27 protein_coding synonymous_variant LOW 1056C>G Val352Val
M0069546 JCOBNCBN_00012 14874 4 Skin 0.27 protein_coding synonymous_variant LOW 1545T>C His515His
M0069547 JCOBNCBN_00011 15012 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -1902A>G None
M0069548 JCOBNCBN_00013 15816 4 Skin 0.27 protein_coding missense_variant MODERATE 673A>G Thr225Ala
M0069549 JCOBNCBN_00013 16004 3 Skin 0.20 protein_coding synonymous_variant LOW 861A>G Ala287Ala
M0069550 JCOBNCBN_00014 17477 3 Skin 0.20 protein_coding synonymous_variant LOW 966C>A Gly322Gly
M0069551 JCOBNCBN_00014 17705 5 Skin 0.33 protein_coding synonymous_variant LOW 738A>G Arg246Arg
M0069552 JCOBNCBN_00014 17744 3 Skin 0.20 protein_coding synonymous_variant LOW 699G>T Thr233Thr
M0069553 JCOBNCBN_00014 17837 3 Skin 0.20 protein_coding synonymous_variant LOW 606C>T Arg202Arg
M0069554 JCOBNCBN_00014 18284 3 Skin 0.20 protein_coding synonymous_variant LOW 159A>C Thr53Thr
M0069555 JCOBNCBN_00014 19109 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -667A>G None
M0069556 JCOBNCBN_00014 19112 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -670C>G None
M0069557 JCOBNCBN_00014 19113 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -671C>T None
M0069558 JCOBNCBN_00014 19128 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -686G>C None
M0069559 JCOBNCBN_00014 19156 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -714T>G None
M0069560 JCOBNCBN_00016 19170 3 Skin 0.20 protein_coding synonymous_variant LOW 861A>G Gln287Gln
M0069561 JCOBNCBN_00016 19305 6 Skin 0.40 protein_coding synonymous_variant LOW 726A>G Leu242Leu
M0069562 JCOBNCBN_00016 19365 3 Skin 0.20 protein_coding synonymous_variant LOW 666G>A Gln222Gln
M0069563 JCOBNCBN_00016 19371 4 Skin 0.27 protein_coding synonymous_variant LOW 660C>A Ala220Ala
M0069564 JCOBNCBN_00016 19901 3 Skin 0.20 protein_coding missense_variant MODERATE 130G>A Val44Ile
M0069565 JCOBNCBN_00016 19947 4 Skin 0.27 protein_coding synonymous_variant LOW 84A>G Ala28Ala
M0069566 JCOBNCBN_00018 21298 5 Skin 0.33 protein_coding missense_variant MODERATE 16A>G Ile6Val
M0069567 JCOBNCBN_00019 21374 6 Skin 0.40 protein_coding missense_variant MODERATE 833G>T Gly278Val
M0069568 JCOBNCBN_00019 21499 3 Skin 0.20 protein_coding synonymous_variant LOW 708T>C His236His
M0069569 JCOBNCBN_00019 21532 4 Skin 0.27 protein_coding synonymous_variant LOW 675C>T Asn225Asn
M0069570 JCOBNCBN_00006 7060 4 Skin 0.27 protein_coding synonymous_variant LOW 462T>C Ala154Ala
M0069571 JCOBNCBN_00004 9002 3 Skin 0.20 protein_coding upstream_gene_variant MODIFIER -3624C>G None
M0069572 JCOBNCBN_00009 9466 3 Skin 0.20 protein_coding synonymous_variant LOW 408C>T Arg136Arg
M0069573 JCOBNCBN_00010 11488 3 Skin 0.20 protein_coding missense_variant MODERATE 1319A>T His440Leu
M0069574 JCOBNCBN_00014 16283 3 Skin 0.20 protein_coding synonymous_variant LOW 2160T>G Gly720Gly
M0069575 JCOBNCBN_00016 19428 4 Skin 0.27 protein_coding synonymous_variant LOW 603C>T Asp201Asp
M0069576 JCOBNCBN_00016 19761 3 Skin 0.20 protein_coding synonymous_variant LOW 270T>G Leu90Leu
M0069577 JCOBNCBN_00017 20032 3 Skin 0.20 protein_coding missense_variant MODERATE 385A>G Thr129Ala
M0069578 JCOBNCBN_00018 21211 4 Skin 0.27 protein_coding synonymous_variant LOW 103T>C Leu35Leu
M0069579 JCOBNCBN_00019 21622 3 Skin 0.20 protein_coding synonymous_variant LOW 585G>T Ala195Ala
M0069580 JCOBNCBN_00019 21625 3 Skin 0.20 protein_coding synonymous_variant LOW 582G>A Glu194Glu
M0069581 JCOBNCBN_00019 21629 3 Skin 0.20 protein_coding missense_variant MODERATE 578A>G Lys193Arg
M0069582 JCOBNCBN_00019 21640 3 Skin 0.20 protein_coding synonymous_variant LOW 567C>T Asn189Asn
M0069583 JCOBNCBN_00019 21805 3 Skin 0.20 protein_coding synonymous_variant LOW 402A>G Thr134Thr
M0069584 JCOBNCBN_00019 22011 3 Skin 0.20 protein_coding missense_variant MODERATE 196T>G Leu66Val
M0069585 JCOBNCBN_00019 22117 4 Skin 0.27 protein_coding synonymous_variant LOW 90T>C Ala30Ala
M0069586 JCOBNCBN_00020 22474 4 Skin 0.27 protein_coding synonymous_variant LOW 1050G>C Val350Val
M0069587 JCOBNCBN_00020 22817 4 Skin 0.27 protein_coding missense_variant MODERATE 707G>A Arg236Gln
M0069588 JCOBNCBN_00020 22818 4 Skin 0.27 protein_coding synonymous_variant LOW 706C>A Arg236Arg
M0069589 JCOBNCBN_00020 22912 3 Skin 0.20 protein_coding synonymous_variant LOW 612G>C Thr204Thr
M0069590 JCOBNCBN_00020 22927 3 Skin 0.20 protein_coding synonymous_variant LOW 597A>C Ile199Ile
M0069591 JCOBNCBN_00020 22978 4 Skin 0.27 protein_coding synonymous_variant LOW 546G>C Ala182Ala
M0069592 JCOBNCBN_00020 22993 4 Skin 0.27 protein_coding synonymous_variant LOW 531A>G Glu177Glu
M0069593 JCOBNCBN_00020 23112 4 Skin 0.27 protein_coding missense_variant MODERATE 412A>G Thr138Ala
M0069594 JCOBNCBN_00020 23116 4 Skin 0.27 protein_coding synonymous_variant LOW 408C>T Ser136Ser
M0069595 JCOBNCBN_00020 23249 6 Skin 0.40 protein_coding missense_variant MODERATE 275G>C Ser92Thr
M0069596 JCOBNCBN_00021 23623 3 Skin 0.20 protein_coding missense_variant MODERATE 1060G>A Ala354Thr
M0069597 JCOBNCBN_00021 23630 4 Skin 0.27 protein_coding synonymous_variant LOW 1053A>G Arg351Arg
M0069598 JCOBNCBN_00010 11212 3 Skin 0.20 protein_coding missense_variant MODERATE 1043T>C Val348Ala
M0069599 JCOBNCBN_00019 21367 4 Skin 0.27 protein_coding synonymous_variant LOW 840T>G Leu280Leu
M0069600 JCOBNCBN_00019 21373 3 Skin 0.20 protein_coding synonymous_variant LOW 834G>C Gly278Gly
M0069601 JCOBNCBN_00019 21391 3 Skin 0.20 protein_coding missense_variant MODERATE 816C>G Ile272Met
M0069602 JCOBNCBN_00019 21393 3 Skin 0.20 protein_coding missense_variant MODERATE 814A>C Ile272Leu
M0069603 JCOBNCBN_00019 21433 4 Skin 0.27 protein_coding synonymous_variant LOW 774A>G Glu258Glu
M0069604 JCOBNCBN_00020 22666 5 Skin 0.33 protein_coding synonymous_variant LOW 858C>T Arg286Arg
M0069605 JCOBNCBN_00020 22672 5 Skin 0.33 protein_coding synonymous_variant LOW 852C>T Asn284Asn
M0069606 JCOBNCBN_00020 22846 3 Skin 0.20 protein_coding synonymous_variant LOW 678C>A Ala226Ala
M0069607 JCOBNCBN_00020 22870 3 Skin 0.20 protein_coding synonymous_variant LOW 654C>T Asn218Asn
M0069608 JCOBNCBN_00015 23554 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4488C>G None
M0069609 JCOBNCBN_00021 24404 4 Skin 0.27 protein_coding synonymous_variant LOW 279A>G Ala93Ala
M0069610 JCOBNCBN_00021 24464 4 Skin 0.27 protein_coding synonymous_variant LOW 219A>T Ala73Ala
M0069611 JCOBNCBN_00021 24483 5 Skin 0.33 protein_coding missense_variant MODERATE 200C>T Ala67Val
M0069612 JCOBNCBN_00021 24551 5 Skin 0.33 protein_coding synonymous_variant LOW 132T>C Thr44Thr
M0069613 JCOBNCBN_00021 24656 3 Skin 0.20 protein_coding synonymous_variant LOW 27C>T Val9Val
M0069614 JCOBNCBN_00022 25329 3 Skin 0.20 protein_coding synonymous_variant LOW 876T>G Gly292Gly
M0069615 JCOBNCBN_00022 25586 5 Skin 0.33 protein_coding synonymous_variant LOW 619T>C Leu207Leu
M0069616 JCOBNCBN_00022 25821 4 Skin 0.27 protein_coding synonymous_variant LOW 384T>C Thr128Thr
M0069617 JCOBNCBN_00022 26100 5 Skin 0.33 protein_coding synonymous_variant LOW 105T>C Arg35Arg
M0069618 JCOBNCBN_00022 26154 4 Skin 0.27 protein_coding synonymous_variant LOW 51G>A Glu17Glu
M0069619 JCOBNCBN_00024 27670 4 Skin 0.27 protein_coding synonymous_variant LOW 1620G>A Glu540Glu
M0069620 JCOBNCBN_00024 28013 5 Skin 0.33 protein_coding missense_variant MODERATE 1277T>C Val426Ala
M0069621 JCOBNCBN_00024 28666 3 Skin 0.20 protein_coding synonymous_variant LOW 624G>T Val208Val
M0069622 JCOBNCBN_00024 28903 7 Skin 0.47 protein_coding synonymous_variant LOW 387T>C Tyr129Tyr
M0069623 JCOBNCBN_00004 5325 3 Skin 0.20 protein_coding synonymous_variant LOW 54A>G Gly18Gly
M0069624 JCOBNCBN_00021 23807 3 Skin 0.20 protein_coding synonymous_variant LOW 876T>C Ala292Ala
M0069625 JCOBNCBN_00016 24725 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4695A>G None
M0069626 JCOBNCBN_00022 24930 3 Skin 0.20 protein_coding synonymous_variant LOW 1275A>C Arg425Arg
M0069627 JCOBNCBN_00022 25107 3 Skin 0.20 protein_coding synonymous_variant LOW 1098G>A Val366Val
M0069628 JCOBNCBN_00023 26902 3 Skin 0.20 protein_coding missense_variant MODERATE 379G>A Asp127Asn
M0069629 JCOBNCBN_00023 27035 3 Skin 0.20 protein_coding synonymous_variant LOW 246C>T Asp82Asp
M0069630 JCOBNCBN_00021 24590 3 Skin 0.20 protein_coding synonymous_variant LOW 93C>T Phe31Phe
M0069631 JCOBNCBN_00018 26272 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4959T>C None
M0069632 JCOBNCBN_00018 26279 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4966C>G None
M0069633 JCOBNCBN_00018 26302 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4989C>T None
M0069634 JCOBNCBN_00018 26305 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4992C>G None
M0069635 JCOBNCBN_00019 26317 4 Skin 0.27 protein_coding upstream_gene_variant MODIFIER -4111A>C None






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
JCOBNCBN_00014 WGG12411.1|GT51 99.9 0 1 764 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