Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1337
  Reference Plasmid   NZ_KX712121.1
  Reference Plasmid Size   7209
  Reference Plasmid GC Content   0.32
  Reference Plasmid Mobility Type   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
M0116472 NMLJBKCF_00005 5413 4 Skin 0.12 protein_coding synonymous_variant LOW 558A>G Thr186Thr
M0116473 NMLJBKCF_00005 5426 4 Skin 0.12 protein_coding missense_variant MODERATE 571T>C Phe191Leu
M0116474 NMLJBKCF_00005 5432 4 Skin 0.12 protein_coding missense_variant MODERATE 577A>G Lys193Glu
M0116475 NMLJBKCF_00005 5447 4 Skin 0.12 protein_coding missense_variant MODERATE 592C>T His198Tyr
M0116476 NMLJBKCF_00005 5452 4 Skin 0.12 protein_coding synonymous_variant LOW 597T>C Gly199Gly
M0116477 NMLJBKCF_00005 5470 4 Skin 0.12 protein_coding synonymous_variant LOW 615T>C Val205Val
M0116478 NMLJBKCF_00005 5606 4 Skin 0.12 protein_coding missense_variant MODERATE 751C>T His251Tyr
M0116479 NMLJBKCF_00005 5608 6 Skin 0.18 protein_coding synonymous_variant LOW 753T>C His251His
M0116480 NMLJBKCF_00005 5609 4 Skin 0.12 protein_coding missense_variant MODERATE 754A>G Lys252Glu
M0116481 NMLJBKCF_00005 5615 4 Skin 0.12 protein_coding missense_variant MODERATE 760G>A Asp254Asn
M0116482 NMLJBKCF_00005 5699 3 Skin 0.09 protein_coding missense_variant MODERATE 844G>A Asp282Asn
M0116483 NMLJBKCF_00005 5752 6 Skin 0.18 protein_coding synonymous_variant LOW 897A>G Glu299Glu
M0116484 NMLJBKCF_00005 5814 5 Skin 0.15 protein_coding missense_variant MODERATE 959C>A Pro320Gln
M0116485 NMLJBKCF_00005 5816 5 Skin 0.15 protein_coding missense_variant MODERATE 961A>G Thr321Ala
M0116486 NMLJBKCF_00005 5838 5 Skin 0.15 protein_coding missense_variant MODERATE 983T>A Ile328Asn
M0116487 NMLJBKCF_00005 5853 4 Skin 0.12 protein_coding missense_variant MODERATE 998G>A Gly333Asp
M0116488 NMLJBKCF_00002 5909 5 Skin 0.15 protein_coding upstream_gene_variant MODIFIER -4383T>C None
M0116489 NMLJBKCF_00002 5935 6 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -4409C>T None
M0116490 NMLJBKCF_00002 5960 6 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -4434G>T None
M0116491 NMLJBKCF_00002 5990 5 Skin 0.15 protein_coding upstream_gene_variant MODIFIER -4464G>A None
M0116492 NMLJBKCF_00002 5999 5 Skin 0.15 protein_coding upstream_gene_variant MODIFIER -4473G>A None
M0116493 NMLJBKCF_00002 6100 5 Skin 0.15 protein_coding upstream_gene_variant MODIFIER -4574G>T None
M0116494 NMLJBKCF_00002 6172 4 Skin 0.12 protein_coding upstream_gene_variant MODIFIER -4646A>G None
M0116495 NMLJBKCF_00002 6227 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -4701G>C None
M0116496 NMLJBKCF_00006 6651 4 Skin 0.12 protein_coding missense_variant MODERATE 27G>T Lys9Asn
M0116497 NMLJBKCF_00006 6673 3 Skin 0.09 protein_coding missense_variant MODERATE 5T>A Leu2His
M0116498 NMLJBKCF_00003 6718 6 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -2975C>A None
M0116499 NMLJBKCF_00003 6723 7 Skin 0.21 protein_coding upstream_gene_variant MODIFIER -2980A>G None
M0116500 NMLJBKCF_00003 6860 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -3117T>A None
M0116501 NMLJBKCF_00003 6861 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -3118T>A None
M0116502 NMLJBKCF_00005 4882 3 Skin 0.09 protein_coding synonymous_variant LOW 27T>C Thr9Thr
M0116503 NMLJBKCF_00005 5106 3 Skin 0.09 protein_coding missense_variant MODERATE 251T>C Val84Ala
M0116504 NMLJBKCF_00005 5107 4 Skin 0.12 protein_coding synonymous_variant LOW 252C>A Val84Val
M0116505 NMLJBKCF_00005 5225 4 Skin 0.12 protein_coding synonymous_variant LOW 370C>T Leu124Leu
M0116506 NMLJBKCF_00005 5311 4 Skin 0.12 protein_coding synonymous_variant LOW 456T>C Tyr152Tyr






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
NMLJBKCF_00003 ARO:3002829 97.1 0 1 519 1.0000 0.9943 lincosamide antibiotic vga-type ABC-F protein antibiotic target protection
JDGJFOHD_00003 ARO:3002829 97.1 0 1 519 1.0000 0.9943 lincosamide antibiotic vga-type ABC-F protein antibiotic target protection






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
NMLJBKCF_00003 3.A.1.121.5 97.7 3.1e-284 1 519 1.0000 0.9943 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
JDGJFOHD_00003 3.A.1.121.5 97.7 3.1e-284 1 519 1.0000 0.9943 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily