Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2562
  Reference Plasmid   1111525849853748_bin.9__k141_288041
  Reference Plasmid Size   11731
  Reference Plasmid GC Content   0.57
  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
M0047249 LJFLBKOP_00001 79 12 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -426A>C None
M0047250 LJFLBKOP_00001 97 13 Skin 0.24 protein_coding upstream_gene_variant MODIFIER -408T>G None
M0047251 LJFLBKOP_00001 118 13 Skin 0.24 protein_coding upstream_gene_variant MODIFIER -387C>T None
M0047252 LJFLBKOP_00009 10055 3 Skin 0.06 protein_coding missense_variant MODERATE 442A>G Ile148Val
M0047253 LJFLBKOP_00003 2669 8 Skin 0.15 protein_coding synonymous_variant LOW 597A>G Leu199Leu
M0047254 LJFLBKOP_00003 2694 8 Skin 0.15 protein_coding missense_variant MODERATE 572C>T Thr191Ile
M0047255 LJFLBKOP_00003 2705 9 Skin 0.17 protein_coding synonymous_variant LOW 561G>A Arg187Arg
M0047256 LJFLBKOP_00004 3403 12 Skin 0.22 protein_coding synonymous_variant LOW 1146A>C Ile382Ile
M0047257 LJFLBKOP_00004 3439 12 Skin 0.22 protein_coding synonymous_variant LOW 1110G>A Ala370Ala
M0047258 LJFLBKOP_00004 3451 12 Skin 0.22 protein_coding synonymous_variant LOW 1098T>G Leu366Leu
M0047259 LJFLBKOP_00004 3456 12 Skin 0.22 protein_coding missense_variant MODERATE 1093A>G Ser365Gly
M0047260 LJFLBKOP_00004 3460 12 Skin 0.22 protein_coding synonymous_variant LOW 1089T>C Gly363Gly
M0047261 LJFLBKOP_00004 3466 12 Skin 0.22 protein_coding synonymous_variant LOW 1083A>G Thr361Thr
M0047262 LJFLBKOP_00004 3469 12 Skin 0.22 protein_coding synonymous_variant LOW 1080C>A Ala360Ala
M0047263 LJFLBKOP_00004 3493 12 Skin 0.22 protein_coding synonymous_variant LOW 1056A>G Ala352Ala
M0047264 LJFLBKOP_00004 3502 12 Skin 0.22 protein_coding synonymous_variant LOW 1047A>T Ile349Ile
M0047265 LJFLBKOP_00004 3517 12 Skin 0.22 protein_coding synonymous_variant LOW 1032A>G Glu344Glu
M0047266 LJFLBKOP_00004 3529 12 Skin 0.22 protein_coding synonymous_variant LOW 1020A>G Ala340Ala
M0047267 LJFLBKOP_00004 3541 12 Skin 0.22 protein_coding synonymous_variant LOW 1008T>C Arg336Arg
M0047268 LJFLBKOP_00004 3553 12 Skin 0.22 protein_coding synonymous_variant LOW 996T>G Leu332Leu
M0047269 LJFLBKOP_00004 3562 12 Skin 0.22 protein_coding synonymous_variant LOW 987G>A Gln329Gln
M0047270 LJFLBKOP_00004 3577 12 Skin 0.22 protein_coding synonymous_variant LOW 972T>G Val324Val
M0047271 LJFLBKOP_00004 3580 12 Skin 0.22 protein_coding synonymous_variant LOW 969C>T Arg323Arg
M0047272 LJFLBKOP_00004 3589 12 Skin 0.22 protein_coding synonymous_variant LOW 960A>C Ala320Ala
M0047273 LJFLBKOP_00004 3598 12 Skin 0.22 protein_coding synonymous_variant LOW 951T>C Arg317Arg
M0047274 LJFLBKOP_00004 3616 12 Skin 0.22 protein_coding synonymous_variant LOW 933G>A Glu311Glu
M0047275 LJFLBKOP_00004 3661 12 Skin 0.22 protein_coding synonymous_variant LOW 888C>T Phe296Phe
M0047276 LJFLBKOP_00004 3664 12 Skin 0.22 protein_coding synonymous_variant LOW 885A>G Leu295Leu
M0047277 LJFLBKOP_00003 2744 7 Skin 0.13 protein_coding synonymous_variant LOW 522G>A Glu174Glu
M0047278 LJFLBKOP_00003 2758 8 Skin 0.15 protein_coding missense_variant MODERATE 508G>C Glu170Gln
M0047279 LJFLBKOP_00008 11313 4 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -1792C>T None
M0047280 LJFLBKOP_00010 10696 4 Skin 0.07 protein_coding synonymous_variant LOW 528G>T Arg176Arg
M0047281 LJFLBKOP_00003 2204 4 Skin 0.07 protein_coding synonymous_variant LOW 1062C>T Val354Val
M0047282 LJFLBKOP_00003 2219 4 Skin 0.07 protein_coding synonymous_variant LOW 1047T>C Phe349Phe
M0047283 LJFLBKOP_00003 2237 4 Skin 0.07 protein_coding synonymous_variant LOW 1029A>T Ala343Ala
M0047284 LJFLBKOP_00003 2246 4 Skin 0.07 protein_coding synonymous_variant LOW 1020T>C Pro340Pro
M0047285 LJFLBKOP_00003 2270 4 Skin 0.07 protein_coding synonymous_variant LOW 996G>A Thr332Thr
M0047286 LJFLBKOP_00003 2291 4 Skin 0.07 protein_coding synonymous_variant LOW 975A>C Gly325Gly
M0047287 LJFLBKOP_00003 2294 4 Skin 0.07 protein_coding synonymous_variant LOW 972T>G Leu324Leu
M0047288 LJFLBKOP_00003 2321 4 Skin 0.07 protein_coding synonymous_variant LOW 945C>G Gly315Gly
M0047289 LJFLBKOP_00003 2327 4 Skin 0.07 protein_coding synonymous_variant LOW 939G>A Thr313Thr
M0047290 LJFLBKOP_00003 2333 4 Skin 0.07 protein_coding synonymous_variant LOW 933A>G Val311Val
M0047291 LJFLBKOP_00003 2336 4 Skin 0.07 protein_coding synonymous_variant LOW 930A>C Gly310Gly
M0047292 LJFLBKOP_00003 2348 4 Skin 0.07 protein_coding synonymous_variant LOW 918A>C Ala306Ala
M0047293 LJFLBKOP_00003 2351 4 Skin 0.07 protein_coding synonymous_variant LOW 915C>T Val305Val
M0047294 LJFLBKOP_00003 2354 4 Skin 0.07 protein_coding synonymous_variant LOW 912C>T Val304Val
M0047295 LJFLBKOP_00003 2360 4 Skin 0.07 protein_coding synonymous_variant LOW 906T>C Val302Val
M0047296 LJFLBKOP_00003 2363 4 Skin 0.07 protein_coding synonymous_variant LOW 903G>A Glu301Glu
M0047297 LJFLBKOP_00003 2390 4 Skin 0.07 protein_coding missense_variant MODERATE 876A>T Glu292Asp
M0047298 LJFLBKOP_00003 2412 4 Skin 0.07 protein_coding missense_variant MODERATE 854T>C Met285Thr
M0047299 LJFLBKOP_00003 2432 4 Skin 0.07 protein_coding synonymous_variant LOW 834C>T Asp278Asp
M0047300 LJFLBKOP_00003 2441 4 Skin 0.07 protein_coding synonymous_variant LOW 825A>T Thr275Thr
M0047301 LJFLBKOP_00003 2465 4 Skin 0.07 protein_coding synonymous_variant LOW 801G>A Val267Val
M0047302 LJFLBKOP_00003 2466 4 Skin 0.07 protein_coding missense_variant MODERATE 800T>C Val267Ala
M0047303 LJFLBKOP_00003 2471 4 Skin 0.07 protein_coding synonymous_variant LOW 795G>A Glu265Glu
M0047304 LJFLBKOP_00001 142 4 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -363C>T None
M0047305 LJFLBKOP_00001 160 4 Skin 0.07 protein_coding upstream_gene_variant MODIFIER -345C>G 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







        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