Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C858
  Reference Plasmid   NZ_CP070578.1
  Reference Plasmid Size   102009
  Reference Plasmid GC Content   0.51
  Reference Plasmid Mobility Type   conjugative





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
M0185168 BIADEGMK_00070 51615 3 Gut 0.43 protein_coding synonymous_variant LOW 189A>T Ser63Ser
M0185169 BIADEGMK_00070 51657 3 Gut 0.43 protein_coding synonymous_variant LOW 147A>T Val49Val
M0185170 BIADEGMK_00070 51690 3 Gut 0.43 protein_coding synonymous_variant LOW 114A>G Leu38Leu
M0185171 BIADEGMK_00070 51701 3 Gut 0.43 protein_coding missense_variant MODERATE 103C>T Leu35Phe
M0185172 BIADEGMK_00070 51705 4 Gut 0.57 protein_coding synonymous_variant LOW 99A>G Arg33Arg
M0185173 BIADEGMK_00070 51735 3 Gut 0.43 protein_coding synonymous_variant LOW 69T>A Val23Val
M0185174 BIADEGMK_00070 51736 3 Gut 0.43 protein_coding missense_variant MODERATE 68T>C Val23Ala
M0185175 BIADEGMK_00070 51737 3 Gut 0.43 protein_coding missense_variant MODERATE 67G>A Val23Ile
M0185176 BIADEGMK_00070 51742 4 Gut 0.57 protein_coding missense_variant MODERATE 62C>T Thr21Ile
M0185177 BIADEGMK_00070 51747 3 Gut 0.43 protein_coding synonymous_variant LOW 57G>A Glu19Glu
M0185178 BIADEGMK_00070 51768 4 Gut 0.57 protein_coding synonymous_variant LOW 36C>T Val12Val
M0185179 BIADEGMK_00070 51771 4 Gut 0.57 protein_coding synonymous_variant LOW 33G>T Thr11Thr
M0185180 BIADEGMK_00064 51804 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4419A>T None
M0185181 BIADEGMK_00064 51808 4 Gut 0.57 protein_coding upstream_gene_variant MODIFIER -4423G>A None
M0185182 BIADEGMK_00064 51825 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4440T>C None
M0185183 BIADEGMK_00064 51838 4 Gut 0.57 protein_coding upstream_gene_variant MODIFIER -4453C>T None
M0185184 BIADEGMK_00064 51861 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4476C>A None
M0185185 BIADEGMK_00064 51862 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4477A>T None
M0185186 BIADEGMK_00064 51863 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4478T>G None
M0185187 BIADEGMK_00064 51925 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4540T>G None
M0185188 BIADEGMK_00064 51970 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4585A>C None
M0185189 BIADEGMK_00064 51990 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4605C>T None
M0185190 BIADEGMK_00064 52021 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4636A>G None
M0185191 BIADEGMK_00064 52068 4 Gut 0.57 protein_coding upstream_gene_variant MODIFIER -4683A>G None
M0185192 BIADEGMK_00064 52082 3 Gut 0.43 protein_coding upstream_gene_variant MODIFIER -4697A>G None
M0185193 BIADEGMK_00064 52152 4 Gut 0.57 protein_coding upstream_gene_variant MODIFIER -4767T>G None
M0185194 BIADEGMK_00071 52190 3 Gut 0.43 protein_coding missense_variant MODERATE 1842A>T Gln614His
M0185195 BIADEGMK_00071 52193 3 Gut 0.43 protein_coding synonymous_variant LOW 1839G>T Gly613Gly
M0185196 BIADEGMK_00071 52200 3 Gut 0.43 protein_coding missense_variant MODERATE 1832C>T Ala611Val
M0185197 BIADEGMK_00071 52295 3 Gut 0.43 protein_coding synonymous_variant LOW 1737G>T Leu579Leu
M0185198 BIADEGMK_00071 52313 4 Gut 0.57 protein_coding synonymous_variant LOW 1719C>T Ala573Ala
M0185199 BIADEGMK_00071 52325 3 Gut 0.43 protein_coding synonymous_variant LOW 1707G>A Lys569Lys
M0185200 BIADEGMK_00071 52373 3 Gut 0.43 protein_coding synonymous_variant LOW 1659T>C Gly553Gly
M0185201 BIADEGMK_00071 52651 3 Gut 0.43 protein_coding synonymous_variant LOW 1381T>C Leu461Leu
M0185202 BIADEGMK_00071 52678 4 Gut 0.57 protein_coding synonymous_variant LOW 1354T>C Leu452Leu
M0185203 BIADEGMK_00071 52679 3 Gut 0.43 protein_coding synonymous_variant LOW 1353G>A Lys451Lys
M0185204 BIADEGMK_00071 52688 3 Gut 0.43 protein_coding synonymous_variant LOW 1344G>T Leu448Leu
M0185205 BIADEGMK_00071 52699 3 Gut 0.43 protein_coding missense_variant MODERATE 1333G>A Val445Ile
M0185206 BIADEGMK_00071 52712 3 Gut 0.43 protein_coding synonymous_variant LOW 1320A>G Lys440Lys
M0185207 BIADEGMK_00071 52723 3 Gut 0.43 protein_coding missense_variant MODERATE 1309A>C Lys437Gln
M0185208 BIADEGMK_00071 52724 4 Gut 0.57 protein_coding synonymous_variant LOW 1308T>C Ala436Ala
M0185209 BIADEGMK_00071 52745 3 Gut 0.43 protein_coding synonymous_variant LOW 1287C>A Val429Val
M0185210 BIADEGMK_00071 52751 3 Gut 0.43 protein_coding synonymous_variant LOW 1281A>G Leu427Leu
M0185211 BIADEGMK_00071 52754 4 Gut 0.57 protein_coding synonymous_variant LOW 1278G>A Glu426Glu
M0185212 BIADEGMK_00071 52757 3 Gut 0.43 protein_coding synonymous_variant LOW 1275A>T Gly425Gly
M0185213 BIADEGMK_00071 52781 4 Gut 0.57 protein_coding synonymous_variant LOW 1251T>C Cys417Cys
M0185214 BIADEGMK_00071 52793 3 Gut 0.43 protein_coding synonymous_variant LOW 1239G>A Arg413Arg
M0185215 BIADEGMK_00071 52799 3 Gut 0.43 protein_coding synonymous_variant LOW 1233G>A Glu411Glu
M0185216 BIADEGMK_00071 52865 3 Gut 0.43 protein_coding synonymous_variant LOW 1167G>A Ala389Ala
M0185217 BIADEGMK_00071 52874 4 Gut 0.57 protein_coding synonymous_variant LOW 1158T>C Thr386Thr
M0185218 BIADEGMK_00071 52879 4 Gut 0.57 protein_coding missense_variant MODERATE 1153G>A Val385Ile
M0185219 BIADEGMK_00071 52916 4 Gut 0.57 protein_coding synonymous_variant LOW 1116C>T Gly372Gly
M0185220 BIADEGMK_00071 53081 4 Gut 0.57 protein_coding missense_variant MODERATE 951T>G Asp317Glu
M0185221 BIADEGMK_00071 53113 4 Gut 0.57 protein_coding missense_variant MODERATE 919G>T Val307Leu
M0185222 BIADEGMK_00071 53207 3 Gut 0.43 protein_coding synonymous_variant LOW 825A>C Arg275Arg
M0185223 BIADEGMK_00071 53330 3 Gut 0.43 protein_coding synonymous_variant LOW 702A>C Ser234Ser
M0185224 BIADEGMK_00071 53333 3 Gut 0.43 protein_coding synonymous_variant LOW 699G>A Lys233Lys
M0185225 BIADEGMK_00071 53337 3 Gut 0.43 protein_coding missense_variant MODERATE 695T>C Ile232Thr
M0185226 BIADEGMK_00071 53360 3 Gut 0.43 protein_coding synonymous_variant LOW 672T>C Gly224Gly
M0185227 BIADEGMK_00071 53378 3 Gut 0.43 protein_coding synonymous_variant LOW 654A>G Arg218Arg
M0185228 BIADEGMK_00071 53426 3 Gut 0.43 protein_coding synonymous_variant LOW 606A>G Lys202Lys
M0185229 BIADEGMK_00071 53488 3 Gut 0.43 protein_coding missense_variant MODERATE 544G>A Val182Ile
M0185230 BIADEGMK_00071 53573 4 Gut 0.57 protein_coding synonymous_variant LOW 459A>G Lys153Lys
M0185231 BIADEGMK_00071 53630 3 Gut 0.43 protein_coding synonymous_variant LOW 402C>T Asn134Asn
M0185232 BIADEGMK_00071 53666 3 Gut 0.43 protein_coding synonymous_variant LOW 366G>A Glu122Glu
M0185233 BIADEGMK_00071 53741 3 Gut 0.43 protein_coding synonymous_variant LOW 291A>G Val97Val
M0185234 BIADEGMK_00071 53774 3 Gut 0.43 protein_coding synonymous_variant LOW 258C>T Asp86Asp
M0185235 BIADEGMK_00071 53801 3 Gut 0.43 protein_coding synonymous_variant LOW 231A>C Gly77Gly
M0185236 BIADEGMK_00071 53804 3 Gut 0.43 protein_coding synonymous_variant LOW 228T>A Ala76Ala
M0185237 BIADEGMK_00071 53816 3 Gut 0.43 protein_coding synonymous_variant LOW 216A>G Ala72Ala
M0185238 BIADEGMK_00071 53855 3 Gut 0.43 protein_coding synonymous_variant LOW 177C>T Gly59Gly
M0185239 BIADEGMK_00071 53867 3 Gut 0.43 protein_coding synonymous_variant LOW 165T>C Asp55Asp
M0185240 BIADEGMK_00071 53892 3 Gut 0.43 protein_coding missense_variant MODERATE 140A>T Glu47Val






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
BIADEGMK_00034 ARO:3003479 100 1.46e-152 1 207 1.0000 0.9952 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic target alteration
BIADEGMK_00041 ARO:3000412 100 4.11e-186 1 271 1.0000 1.0000 sulfonamide antibiotic sulfonamide resistant sul antibiotic target replacement
BIADEGMK_00068 ARO:3004629 100 5.08e-134 1 178 1.0000 1.0000 aminoglycoside antibiotic AAC(6') antibiotic inactivation
BIADEGMK_00069 ARO:3002635 99.3 2.1e-218 1 299 1.0000 1.0000 aminoglycoside antibiotic APH(2'') antibiotic inactivation






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
BIADEGMK_00090 PHI:11406 dsbC 99.6 7e-135 1 235 1.0000 1.0000 rodents pneumonia thiol:disulfide interchange protein 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
BIADEGMK_00006 QDC33125.1|GH23 100 5.28e-123 1 177 1 1
BIADEGMK_00014 AIO10552.2|GH23 100 7.89e-238 5 342 0.9883 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