Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2635
  Reference Plasmid   1111525849858814_bin.32__k141_59504
  Reference Plasmid Size   15623
  Reference Plasmid GC Content   0.71
  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
M0050210 PMKOLLCH_00003 3055 4 Skin 0.24 protein_coding synonymous_variant LOW 61A>C Arg21Arg
M0050211 PMKOLLCH_00004 3284 4 Skin 0.24 protein_coding missense_variant MODERATE 61T>G Ser21Ala
M0050212 PMKOLLCH_00004 3916 3 Skin 0.18 protein_coding synonymous_variant LOW 693C>T Asp231Asp
M0050213 PMKOLLCH_00004 4104 3 Skin 0.18 protein_coding missense_variant MODERATE 881G>A Arg294Lys
M0050214 PMKOLLCH_00002 4525 3 Skin 0.18 protein_coding upstream_gene_variant MODIFIER -2762A>C None
M0050215 PMKOLLCH_00001 395 3 Skin 0.18 protein_coding synonymous_variant LOW 336T>G Pro112Pro
M0050216 PMKOLLCH_00001 503 3 Skin 0.18 protein_coding synonymous_variant LOW 444T>C Ala148Ala
M0050217 PMKOLLCH_00001 509 3 Skin 0.18 protein_coding synonymous_variant LOW 450C>G Ala150Ala
M0050218 PMKOLLCH_00001 521 3 Skin 0.18 protein_coding synonymous_variant LOW 462A>G Arg154Arg
M0050219 PMKOLLCH_00008 8061 3 Skin 0.18 protein_coding synonymous_variant LOW 789C>A Thr263Thr
M0050220 PMKOLLCH_00011 10360 3 Skin 0.18 protein_coding synonymous_variant LOW 414A>G Pro138Pro
M0050221 PMKOLLCH_00011 10372 3 Skin 0.18 protein_coding synonymous_variant LOW 402C>G Ala134Ala
M0050222 PMKOLLCH_00007 6884 5 Skin 0.29 protein_coding synonymous_variant LOW 315G>C Val105Val
M0050223 PMKOLLCH_00007 6947 6 Skin 0.35 protein_coding synonymous_variant LOW 378G>C Arg126Arg
M0050224 PMKOLLCH_00007 6954 6 Skin 0.35 protein_coding missense_variant MODERATE 385A>T Ser129Cys
M0050225 PMKOLLCH_00007 6955 6 Skin 0.35 protein_coding missense_variant MODERATE 386G>C Ser129Thr
M0050226 PMKOLLCH_00007 6956 6 Skin 0.35 protein_coding missense_variant MODERATE 387C>G Ser129Arg
M0050227 PMKOLLCH_00007 6977 6 Skin 0.35 protein_coding synonymous_variant LOW 408C>G Gly136Gly
M0050228 PMKOLLCH_00007 7022 4 Skin 0.24 protein_coding synonymous_variant LOW 453C>G Gly151Gly
M0050229 PMKOLLCH_00007 7166 8 Skin 0.47 protein_coding synonymous_variant LOW 597C>G Val199Val
M0050230 PMKOLLCH_00007 7226 7 Skin 0.41 protein_coding synonymous_variant LOW 657G>A Glu219Glu
M0050231 PMKOLLCH_00007 7232 7 Skin 0.41 protein_coding missense_variant MODERATE 663A>T Glu221Asp
M0050232 PMKOLLCH_00007 7265 3 Skin 0.18 protein_coding synonymous_variant LOW 696A>G Gly232Gly
M0050233 PMKOLLCH_00008 7276 7 Skin 0.41 protein_coding missense_variant MODERATE 4T>A Ser2Thr
M0050234 PMKOLLCH_00008 7422 6 Skin 0.35 protein_coding synonymous_variant LOW 150A>G Gln50Gln
M0050235 PMKOLLCH_00008 7512 5 Skin 0.29 protein_coding synonymous_variant LOW 240G>C Val80Val
M0050236 PMKOLLCH_00008 7620 6 Skin 0.35 protein_coding synonymous_variant LOW 348T>C Gly116Gly
M0050237 PMKOLLCH_00008 7675 4 Skin 0.24 protein_coding synonymous_variant LOW 403T>C Leu135Leu
M0050238 PMKOLLCH_00008 7791 8 Skin 0.47 protein_coding synonymous_variant LOW 519G>T Leu173Leu
M0050239 PMKOLLCH_00008 7903 7 Skin 0.41 protein_coding synonymous_variant LOW 631T>C Leu211Leu
M0050240 PMKOLLCH_00008 7908 3 Skin 0.18 protein_coding synonymous_variant LOW 636C>G Ala212Ala
M0050241 PMKOLLCH_00008 7911 3 Skin 0.18 protein_coding synonymous_variant LOW 639G>C Gly213Gly
M0050242 PMKOLLCH_00008 7917 3 Skin 0.18 protein_coding synonymous_variant LOW 645G>C Leu215Leu
M0050243 PMKOLLCH_00008 7932 7 Skin 0.41 protein_coding synonymous_variant LOW 660T>C Tyr220Tyr
M0050244 PMKOLLCH_00008 8025 5 Skin 0.29 protein_coding synonymous_variant LOW 753C>T Val251Val
M0050245 PMKOLLCH_00008 8067 5 Skin 0.29 protein_coding synonymous_variant LOW 795G>C Val265Val
M0050246 PMKOLLCH_00009 8218 3 Skin 0.18 protein_coding synonymous_variant LOW 57C>T Gly19Gly
M0050247 PMKOLLCH_00009 8227 7 Skin 0.41 protein_coding synonymous_variant LOW 66T>C Thr22Thr
M0050248 PMKOLLCH_00009 8231 7 Skin 0.41 protein_coding missense_variant MODERATE 70G>A Val24Ile
M0050249 PMKOLLCH_00009 8232 7 Skin 0.41 protein_coding missense_variant MODERATE 71T>C Val24Ala
M0050250 PMKOLLCH_00009 8233 7 Skin 0.41 protein_coding synonymous_variant LOW 72C>G Val24Val
M0050251 PMKOLLCH_00009 8398 5 Skin 0.29 protein_coding synonymous_variant LOW 237A>G Gly79Gly
M0050252 PMKOLLCH_00009 8449 3 Skin 0.18 protein_coding synonymous_variant LOW 288G>A Glu96Glu
M0050253 PMKOLLCH_00009 8455 3 Skin 0.18 protein_coding synonymous_variant LOW 294G>C Ala98Ala
M0050254 PMKOLLCH_00009 8707 6 Skin 0.35 protein_coding synonymous_variant LOW 546C>G Leu182Leu
M0050255 PMKOLLCH_00009 8710 6 Skin 0.35 protein_coding synonymous_variant LOW 549C>G Gly183Gly
M0050256 PMKOLLCH_00009 8713 6 Skin 0.35 protein_coding synonymous_variant LOW 552C>G Leu184Leu
M0050257 PMKOLLCH_00009 8714 6 Skin 0.35 protein_coding missense_variant MODERATE 553G>C Val185Leu
M0050258 PMKOLLCH_00009 8765 3 Skin 0.18 protein_coding missense_variant MODERATE 604G>A Val202Ile
M0050259 PMKOLLCH_00009 8890 4 Skin 0.24 protein_coding synonymous_variant LOW 729A>G Gln243Gln
M0050260 PMKOLLCH_00003 2306 3 Skin 0.18 protein_coding synonymous_variant LOW 810T>C Pro270Pro
M0050261 PMKOLLCH_00003 2344 3 Skin 0.18 protein_coding missense_variant MODERATE 772C>G Gln258Glu
M0050262 PMKOLLCH_00003 2345 3 Skin 0.18 protein_coding synonymous_variant LOW 771T>C Arg257Arg
M0050263 PMKOLLCH_00004 3601 3 Skin 0.18 protein_coding synonymous_variant LOW 378C>G Gly126Gly
M0050264 PMKOLLCH_00004 3607 3 Skin 0.18 protein_coding synonymous_variant LOW 384C>G Ala128Ala
M0050265 PMKOLLCH_00004 3610 3 Skin 0.18 protein_coding synonymous_variant LOW 387G>C Thr129Thr
M0050266 PMKOLLCH_00006 6024 3 Skin 0.18 protein_coding synonymous_variant LOW 225G>C Thr75Thr
M0050267 PMKOLLCH_00006 6072 3 Skin 0.18 protein_coding synonymous_variant LOW 273C>G Val91Val
M0050268 PMKOLLCH_00006 6075 3 Skin 0.18 protein_coding synonymous_variant LOW 276C>G Arg92Arg
M0050269 PMKOLLCH_00007 6587 5 Skin 0.29 protein_coding missense_variant MODERATE 18C>G Asp6Glu
M0050270 PMKOLLCH_00007 6674 3 Skin 0.18 protein_coding synonymous_variant LOW 105C>T Ile35Ile
M0050271 PMKOLLCH_00007 6780 4 Skin 0.24 protein_coding missense_variant MODERATE 211C>A Leu71Met
M0050272 PMKOLLCH_00007 6890 3 Skin 0.18 protein_coding synonymous_variant LOW 321G>C Ala107Ala
M0050273 PMKOLLCH_00007 6893 3 Skin 0.18 protein_coding synonymous_variant LOW 324G>C Pro108Pro
M0050274 PMKOLLCH_00007 6899 3 Skin 0.18 protein_coding synonymous_variant LOW 330G>C Gly110Gly
M0050275 PMKOLLCH_00007 6677 3 Skin 0.18 protein_coding synonymous_variant LOW 108C>G Leu36Leu
M0050276 PMKOLLCH_00007 7124 4 Skin 0.24 protein_coding synonymous_variant LOW 555G>C Thr185Thr
M0050277 PMKOLLCH_00008 7779 5 Skin 0.29 protein_coding synonymous_variant LOW 507G>A Glu169Glu
M0050278 PMKOLLCH_00009 8257 5 Skin 0.29 protein_coding synonymous_variant LOW 96C>G Ala32Ala
M0050279 PMKOLLCH_00009 8467 3 Skin 0.18 protein_coding synonymous_variant LOW 306A>G Gly102Gly
M0050280 PMKOLLCH_00009 8485 3 Skin 0.18 protein_coding synonymous_variant LOW 324T>G Gly108Gly
M0050281 PMKOLLCH_00009 8518 5 Skin 0.29 protein_coding synonymous_variant LOW 357T>C Arg119Arg
M0050282 PMKOLLCH_00009 8908 3 Skin 0.18 protein_coding synonymous_variant LOW 747T>C Asp249Asp
M0050283 PMKOLLCH_00003 2126 3 Skin 0.18 protein_coding synonymous_variant LOW 990A>G Leu330Leu
M0050284 PMKOLLCH_00004 3295 3 Skin 0.18 protein_coding synonymous_variant LOW 72C>T Val24Val
M0050285 PMKOLLCH_00004 3298 3 Skin 0.18 protein_coding synonymous_variant LOW 75G>C Ser25Ser
M0050286 PMKOLLCH_00009 8321 4 Skin 0.24 protein_coding synonymous_variant LOW 160C>T Leu54Leu
M0050287 PMKOLLCH_00008 7314 3 Skin 0.18 protein_coding synonymous_variant LOW 42C>A Gly14Gly






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
PMKOLLCH_00004 PHI:9127 bab2_0282 75.6 1.8e-170 5 401 0.9900 0.9975 rodents brucellosis ABC transporter permease reduced virulence
PMKOLLCH_00005 PHI:9127 bab2_0282 70.8 1.1e-161 1 399 1.0000 0.9975 rodents brucellosis ABC transporter permease 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





        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