Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2099
  Reference Plasmid   1111525849742797_bin.26__k141_339666
  Reference Plasmid Size   42334
  Reference Plasmid GC Content   0.54
  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
M0024726 FEPLLMDA_00007 9151 20 Skin 0.27 protein_coding synonymous_variant LOW 51C>T Val17Val
M0024727 FEPLLMDA_00007 9154 20 Skin 0.27 protein_coding synonymous_variant LOW 48C>T Gly16Gly
M0024728 FEPLLMDA_00034 35158 5 Skin 0.07 protein_coding synonymous_variant LOW 408C>T Gly136Gly
M0024729 FEPLLMDA_00037 37687 3 Skin 0.04 protein_coding synonymous_variant LOW 397C>T Leu133Leu
M0024730 FEPLLMDA_00037 37805 4 Skin 0.05 protein_coding synonymous_variant LOW 279A>C Thr93Thr
M0024731 FEPLLMDA_00037 37835 4 Skin 0.05 protein_coding synonymous_variant LOW 249C>G Val83Val
M0024732 FEPLLMDA_00020 22332 5 Skin 0.07 protein_coding synonymous_variant LOW 1029A>G Glu343Glu
M0024733 FEPLLMDA_00037 37780 3 Skin 0.04 protein_coding missense_variant MODERATE 304T>G Phe102Val
M0024734 FEPLLMDA_00032 38252 4 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -4385C>T None
M0024735 FEPLLMDA_00032 38275 4 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -4408T>C None
M0024736 FEPLLMDA_00032 38276 4 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -4409G>T None
M0024737 FEPLLMDA_00032 38284 4 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -4417G>A None
M0024738 FEPLLMDA_00032 38306 4 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -4439C>T None
M0024739 FEPLLMDA_00032 38129 3 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -4262C>T 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
FEPLLMDA_00017 VFG002414 ECP 75.9 5e-79 1 195 1.0 1 Adherence E. coli common pilus structural subunit EcpA experiment
FEPLLMDA_00017 VFG034419 ECP 76.4 1.3e-78 1 195 1.0 1 Adherence E. coli common pilus structural subunit EcpA prediction







        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
FEPLLMDA_00003 PHI:7520 VK055_1952 78.7 6e-221 7 490 0.9878 0.9938 rodents pneumonia betaine aldehyde dehydrogenase unaffected pathogenicity
FEPLLMDA_00004 PHI:10583 betL 76.5 1.6e-76 1 187 0.9689 0.9590 monocots soft rot HTH-type transcriptional regulator unaffected pathogenicity






        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
FEPLLMDA_00005 2.A.15.1.4 82.2 0 5 678 0.9926 0.9956 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.15 The Betaine/Carnitine/Choline Transporter (BCCT) Family
FEPLLMDA_00030 2.A.8.1.7 79.8 9.7e-189 1 456 1.0000 1.0000 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.8 The Gluconate:H+ Symporter (GntP) Family
FEPLLMDA_00035 2.A.7.3.6 70.1 3e-106 14 294 0.9525 0.9525 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.7 The Drug/Metabolite Transporter (DMT) Superfamily
FEPLLMDA_00040 3.A.1.3.2 90.3 6.3e-126 1 247 1.0000 1.0333 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FEPLLMDA_00041 3.A.1.3.2 94.5 6.6e-111 1 219 1.0000 0.9125 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily
FEPLLMDA_00042 3.A.1.3.2 90.8 2.4e-122 1 240 1.0000 1.0000 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.1 The ATP-binding Cassette (ABC) Superfamily