Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1262
  Reference Plasmid   NZ_CP145596.1
  Reference Plasmid Size   47919
  Reference Plasmid GC Content   0.30
  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
M0115140 ILBMMANC_00014 10294 6 Skin 0.16 protein_coding synonymous_variant LOW 99G>A Arg33Arg
M0115141 ILBMMANC_00014 10333 6 Skin 0.16 protein_coding synonymous_variant LOW 138T>A Gly46Gly
M0115142 ILBMMANC_00014 10340 5 Skin 0.14 protein_coding missense_variant MODERATE 145G>A Ala49Thr
M0115143 ILBMMANC_00014 10610 3 Skin 0.08 protein_coding missense_variant MODERATE 415A>G Asn139Asp
M0115144 ILBMMANC_00014 10625 7 Skin 0.19 protein_coding synonymous_variant LOW 430C>T Leu144Leu
M0115145 ILBMMANC_00014 10679 8 Skin 0.22 protein_coding missense_variant MODERATE 484T>G Ser162Ala
M0115146 ILBMMANC_00014 10780 8 Skin 0.22 protein_coding synonymous_variant LOW 585T>C Asp195Asp
M0115147 ILBMMANC_00010 10823 8 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -2866G>A None
M0115148 ILBMMANC_00015 10914 7 Skin 0.19 protein_coding missense_variant MODERATE 83C>A Thr28Lys
M0115149 ILBMMANC_00003 7257 6 Skin 0.16 protein_coding upstream_gene_variant MODIFIER -4902T>C None
M0115150 ILBMMANC_00005 3851 4 Skin 0.11 protein_coding synonymous_variant LOW 510T>C Pro170Pro
M0115151 ILBMMANC_00011 8093 5 Skin 0.14 protein_coding missense_variant MODERATE 14A>C Lys5Thr
M0115152 ILBMMANC_00003 2591 3 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -236T>A None
M0115153 ILBMMANC_00010 10164 5 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2207G>A None
M0115154 ILBMMANC_00014 10264 5 Skin 0.14 protein_coding synonymous_variant LOW 69A>G Leu23Leu
M0115155 ILBMMANC_00014 10281 5 Skin 0.14 protein_coding missense_variant MODERATE 86G>A Arg29Lys
M0115156 ILBMMANC_00014 10293 5 Skin 0.14 protein_coding missense_variant MODERATE 98G>A Arg33Lys
M0115157 ILBMMANC_00014 10297 5 Skin 0.14 protein_coding synonymous_variant LOW 102A>G Lys34Lys
M0115158 ILBMMANC_00014 10447 4 Skin 0.11 protein_coding synonymous_variant LOW 252A>G Val84Val
M0115159 ILBMMANC_00014 10618 3 Skin 0.08 protein_coding missense_variant MODERATE 423A>C Leu141Phe
M0115160 ILBMMANC_00014 10720 3 Skin 0.08 protein_coding synonymous_variant LOW 525T>C Ser175Ser
M0115161 ILBMMANC_00014 10771 5 Skin 0.14 protein_coding synonymous_variant LOW 576T>A Ile192Ile
M0115162 ILBMMANC_00010 10829 5 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -2872A>G None
M0115163 ILBMMANC_00015 10972 6 Skin 0.16 protein_coding synonymous_variant LOW 141C>T Ile47Ile
M0115164 ILBMMANC_00015 11086 7 Skin 0.19 protein_coding synonymous_variant LOW 255G>A Val85Val
M0115165 ILBMMANC_00015 11104 7 Skin 0.19 protein_coding missense_variant MODERATE 273T>G Asp91Glu
M0115166 ILBMMANC_00010 10159 4 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -2202A>G None
M0115167 ILBMMANC_00014 10228 3 Skin 0.08 protein_coding synonymous_variant LOW 33T>G Leu11Leu






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
ILBMMANC_00014 Cadmium (Cd), Zinc (Zn) 93.7 2.9e-101 1 205 1.0000 1.0000 experiment
ILBMMANC_00014 Cadmium (Cd), Zinc (Zn) 100 1e-102 1 205 1.0000 1.0000 prediction






        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
ILBMMANC_00007 PHI:6191 Lqo 81.5 1.2e-245 1 497 0.9980 1.0000 rodents skin infection; food poisoning; respiratory disease L-lactate-quinone oxidoreductases reduced virulence






        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
ILBMMANC_00028 ATN03928.1|GT8 100 0 1 446 1 1
ILBMMANC_00029 ATN03927.1|GT4 100 0 1 503 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
ILBMMANC_00014 2.A.77.1.1 93.2 2.4e-99 1 205 1.0000 0.9809 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.77 The Cadmium Resistance (CadD) Family