Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3237
  Reference Plasmid   MET0548_bin.1__k81_1728
  Reference Plasmid Size   9535
  Reference Plasmid GC Content   0.39
  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
M0081490 MFDIODJG_00001 329 3 Skin 0.60 protein_coding missense_variant MODERATE 128C>T Ala43Val
M0081491 MFDIODJG_00001 332 3 Skin 0.60 protein_coding missense_variant MODERATE 131T>C Leu44Pro
M0081492 MFDIODJG_00001 364 4 Skin 0.80 protein_coding missense_variant MODERATE 163A>G Ile55Val
M0081493 MFDIODJG_00001 464 4 Skin 0.80 protein_coding missense_variant MODERATE 263T>C Val88Ala
M0081494 MFDIODJG_00002 734 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -36C>T None
M0081495 MFDIODJG_00002 796 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -98A>G None
M0081496 MFDIODJG_00002 813 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -115C>T None
M0081497 MFDIODJG_00002 838 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -140G>A None
M0081498 MFDIODJG_00002 885 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -187C>A None
M0081499 MFDIODJG_00002 1237 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -539T>C None
M0081500 MFDIODJG_00002 1241 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -543C>A None
M0081501 MFDIODJG_00002 1267 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -569C>T None
M0081502 MFDIODJG_00002 1283 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -585T>A None
M0081503 MFDIODJG_00002 1297 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -599C>T None
M0081504 MFDIODJG_00002 1328 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -630C>A None
M0081505 MFDIODJG_00002 1337 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -639T>C None
M0081506 MFDIODJG_00002 1341 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -643C>T None
M0081507 MFDIODJG_00002 1378 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -680C>A None
M0081508 MFDIODJG_00002 1381 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -683G>T None
M0081509 MFDIODJG_00002 1394 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -696G>C None
M0081510 MFDIODJG_00002 1395 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -697A>T None
M0081511 MFDIODJG_00002 1407 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -709T>C None
M0081512 MFDIODJG_00002 1461 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -763G>A None
M0081513 MFDIODJG_00002 1543 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -845T>G None
M0081514 MFDIODJG_00002 1799 4 Skin 0.80 protein_coding upstream_gene_variant MODIFIER -1101A>G None
M0081515 MFDIODJG_00005 2455 4 Skin 0.80 protein_coding synonymous_variant LOW 123A>G Leu41Leu
M0081516 MFDIODJG_00005 2473 4 Skin 0.80 protein_coding synonymous_variant LOW 105T>C His35His
M0081517 MFDIODJG_00005 2488 4 Skin 0.80 protein_coding synonymous_variant LOW 90A>T Val30Val
M0081518 MFDIODJG_00005 2497 4 Skin 0.80 protein_coding synonymous_variant LOW 81G>A Gln27Gln
M0081519 MFDIODJG_00005 2506 4 Skin 0.80 protein_coding synonymous_variant LOW 72A>G Ala24Ala
M0081520 MFDIODJG_00002 2579 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -1881C>G None
M0081521 MFDIODJG_00002 2836 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -2138T>G None
M0081522 MFDIODJG_00002 2848 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -2150A>G None
M0081523 MFDIODJG_00002 2850 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -2152A>G None
M0081524 MFDIODJG_00006 3025 3 Skin 0.60 protein_coding synonymous_variant LOW 165A>G Ala55Ala
M0081525 MFDIODJG_00007 3667 3 Skin 0.60 protein_coding synonymous_variant LOW 210T>C Asp70Asp
M0081526 MFDIODJG_00007 3754 3 Skin 0.60 protein_coding synonymous_variant LOW 297A>G Leu99Leu
M0081527 MFDIODJG_00007 3910 3 Skin 0.60 protein_coding synonymous_variant LOW 453G>A Glu151Glu
M0081528 MFDIODJG_00007 3976 3 Skin 0.60 protein_coding missense_variant MODERATE 519A>G Ile173Met
M0081529 MFDIODJG_00007 3977 3 Skin 0.60 protein_coding synonymous_variant LOW 520C>A Arg174Arg
M0081530 MFDIODJG_00007 3978 3 Skin 0.60 protein_coding missense_variant MODERATE 521G>A Arg174Gln
M0081531 MFDIODJG_00007 4160 3 Skin 0.60 protein_coding missense_variant MODERATE 703A>G Thr235Ala
M0081532 MFDIODJG_00007 4180 3 Skin 0.60 protein_coding synonymous_variant LOW 723A>G Gln241Gln
M0081533 MFDIODJG_00002 4253 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -3555G>C None
M0081534 MFDIODJG_00002 4256 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -3558A>C None
M0081535 MFDIODJG_00008 4526 3 Skin 0.60 protein_coding synonymous_variant LOW 189T>C Tyr63Tyr
M0081536 MFDIODJG_00002 4627 3 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -3929A>G None
M0081537 MFDIODJG_00009 4686 3 Skin 0.60 protein_coding synonymous_variant LOW 699T>C Ala233Ala
M0081538 MFDIODJG_00009 4695 3 Skin 0.60 protein_coding synonymous_variant LOW 690T>C Phe230Phe
M0081539 MFDIODJG_00009 4775 3 Skin 0.60 protein_coding missense_variant MODERATE 610G>T Ala204Ser
M0081540 MFDIODJG_00009 4839 3 Skin 0.60 protein_coding synonymous_variant LOW 546C>T Ser182Ser
M0081541 MFDIODJG_00009 4842 3 Skin 0.60 protein_coding synonymous_variant LOW 543C>G Ala181Ala
M0081542 MFDIODJG_00009 4902 3 Skin 0.60 protein_coding synonymous_variant LOW 483A>G Gln161Gln
M0081543 MFDIODJG_00009 4980 3 Skin 0.60 protein_coding synonymous_variant LOW 405T>C Ser135Ser
M0081544 MFDIODJG_00009 4995 3 Skin 0.60 protein_coding synonymous_variant LOW 390A>C Leu130Leu
M0081545 MFDIODJG_00009 5211 3 Skin 0.60 protein_coding synonymous_variant LOW 174T>C Gly58Gly
M0081546 MFDIODJG_00009 5245 3 Skin 0.60 protein_coding missense_variant MODERATE 140C>T Ala47Val
M0081547 MFDIODJG_00009 5343 3 Skin 0.60 protein_coding synonymous_variant LOW 42T>C Thr14Thr
M0081548 MFDIODJG_00002 618 3 Skin 0.60 protein_coding synonymous_variant LOW 81C>T Phe27Phe
M0081549 MFDIODJG_00002 621 3 Skin 0.60 protein_coding synonymous_variant LOW 78T>G Ala26Ala
M0081550 MFDIODJG_00005 2362 3 Skin 0.60 protein_coding synonymous_variant LOW 216G>A Gln72Gln
M0081551 MFDIODJG_00005 2383 3 Skin 0.60 protein_coding synonymous_variant LOW 195G>C Val65Val






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