Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1210
  Reference Plasmid   NZ_CP135141.1
  Reference Plasmid Size   56226
  Reference Plasmid GC Content   0.39
  Reference Plasmid Mobility Type   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
M0114342 AFJLOOPB_00032 33688 5 Skin 0.09 protein_coding missense_variant MODERATE 641T>C Met214Thr
M0114343 AFJLOOPB_00031 33911 6 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -1042T>C None
M0114344 AFJLOOPB_00042 46614 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -4618T>C None
M0114345 AFJLOOPB_00042 46622 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -4626A>G None
M0114346 AFJLOOPB_00042 46660 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -4664C>G None
M0114347 AFJLOOPB_00042 46906 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -4910A>G None
M0114348 AFJLOOPB_00042 46951 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -4955C>T None
M0114349 AFJLOOPB_00050 47246 3 Skin 0.06 protein_coding synonymous_variant LOW 105C>T Arg35Arg
M0114350 AFJLOOPB_00050 47306 6 Skin 0.11 protein_coding synonymous_variant LOW 165T>C Val55Val
M0114351 AFJLOOPB_00050 47552 3 Skin 0.06 protein_coding synonymous_variant LOW 411C>T Leu137Leu
M0114352 AFJLOOPB_00045 48232 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -3557C>T None
M0114353 AFJLOOPB_00045 48362 7 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -3687A>C None
M0114354 AFJLOOPB_00034 34721 6 Skin 0.11 protein_coding stop_lost&splice_region_variant HIGH 467A>G Ter156Trpext*?
M0114355 AFJLOOPB_00031 34994 9 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -2125T>C None
M0114356 AFJLOOPB_00045 48352 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -3677G>T None
M0114357 AFJLOOPB_00045 48385 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -3710C>A None
M0114358 AFJLOOPB_00053 50383 5 Skin 0.09 protein_coding synonymous_variant LOW 906A>G Leu302Leu
M0114359 AFJLOOPB_00014 13734 9 Skin 0.17 protein_coding synonymous_variant LOW 78T>C Val26Val
M0114360 AFJLOOPB_00014 13750 3 Skin 0.06 protein_coding synonymous_variant LOW 94T>C Leu32Leu
M0114361 AFJLOOPB_00014 13772 3 Skin 0.06 protein_coding missense_variant MODERATE 116C>T Thr39Ile
M0114362 AFJLOOPB_00014 13782 3 Skin 0.06 protein_coding synonymous_variant LOW 126C>T Gly42Gly
M0114363 AFJLOOPB_00014 13836 3 Skin 0.06 protein_coding synonymous_variant LOW 180A>G Ala60Ala
M0114364 AFJLOOPB_00015 14081 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -640G>C None
M0114365 AFJLOOPB_00034 34383 3 Skin 0.06 protein_coding synonymous_variant LOW 129T>A Arg43Arg
M0114366 AFJLOOPB_00012 12286 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -118A>G None
M0114367 AFJLOOPB_00012 12400 6 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -4A>G None
M0114368 AFJLOOPB_00012 13044 6 Skin 0.11 protein_coding missense_variant MODERATE 641T>C Met214Thr
M0114369 AFJLOOPB_00014 13496 8 Skin 0.15 protein_coding upstream_gene_variant MODIFIER -161G>A None
M0114370 AFJLOOPB_00014 13523 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -134T>C None
M0114371 AFJLOOPB_00014 13537 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -120G>A None
M0114372 AFJLOOPB_00014 13541 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -116G>T None
M0114373 AFJLOOPB_00014 13620 7 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -37A>T None
M0114374 AFJLOOPB_00014 13625 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -32C>T None
M0114375 AFJLOOPB_00014 13648 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -9A>G None
M0114376 AFJLOOPB_00014 13803 6 Skin 0.11 protein_coding missense_variant MODERATE 147C>A Asp49Glu
M0114377 AFJLOOPB_00045 49392 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -4717C>T None
M0114378 AFJLOOPB_00053 50008 3 Skin 0.06 protein_coding synonymous_variant LOW 531T>G Val177Val
M0114379 AFJLOOPB_00053 50834 3 Skin 0.06 protein_coding missense_variant MODERATE 1357A>G Ile453Val
M0114380 AFJLOOPB_00053 50886 3 Skin 0.06 protein_coding missense_variant MODERATE 1409C>A Ala470Asp
M0114381 AFJLOOPB_00053 50946 3 Skin 0.06 protein_coding missense_variant MODERATE 1469C>A Thr490Lys
M0114382 AFJLOOPB_00015 14417 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -304C>T None
M0114383 AFJLOOPB_00015 14471 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -250T>A None
M0114384 AFJLOOPB_00015 14665 6 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -56C>T None
M0114385 AFJLOOPB_00015 14672 6 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -49T>C None
M0114386 AFJLOOPB_00015 14843 6 Skin 0.11 protein_coding synonymous_variant LOW 123C>T Thr41Thr
M0114387 AFJLOOPB_00015 14915 6 Skin 0.11 protein_coding synonymous_variant LOW 195G>A Val65Val
M0114388 AFJLOOPB_00015 15272 5 Skin 0.09 protein_coding synonymous_variant LOW 552C>T Gly184Gly
M0114389 AFJLOOPB_00016 15753 6 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -51C>A None
M0114390 AFJLOOPB_00016 15930 7 Skin 0.13 protein_coding missense_variant MODERATE 127A>G Ile43Val
M0114391 AFJLOOPB_00016 15937 4 Skin 0.08 protein_coding missense_variant MODERATE 134A>C Asn45Thr
M0114392 AFJLOOPB_00016 16013 4 Skin 0.08 protein_coding synonymous_variant LOW 210A>G Ala70Ala
M0114393 AFJLOOPB_00017 16329 7 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -317T>C None
M0114394 AFJLOOPB_00017 16336 7 Skin 0.13 protein_coding upstream_gene_variant MODIFIER -310G>C None
M0114395 AFJLOOPB_00017 16732 6 Skin 0.11 protein_coding synonymous_variant LOW 87T>C Leu29Leu
M0114396 AFJLOOPB_00017 16922 5 Skin 0.09 protein_coding missense_variant MODERATE 277G>A Val93Ile
M0114397 AFJLOOPB_00017 16981 7 Skin 0.13 protein_coding synonymous_variant LOW 336C>T Gly112Gly
M0114398 AFJLOOPB_00017 17008 7 Skin 0.13 protein_coding synonymous_variant LOW 363A>G Gln121Gln
M0114399 AFJLOOPB_00017 17017 5 Skin 0.09 protein_coding synonymous_variant LOW 372C>T Ala124Ala
M0114400 AFJLOOPB_00017 17140 4 Skin 0.08 protein_coding synonymous_variant LOW 495T>G Ala165Ala
M0114401 AFJLOOPB_00017 17149 4 Skin 0.08 protein_coding synonymous_variant LOW 504G>A Val168Val
M0114402 AFJLOOPB_00017 17269 6 Skin 0.11 protein_coding synonymous_variant LOW 624T>C Phe208Phe
M0114403 AFJLOOPB_00017 17932 6 Skin 0.11 protein_coding synonymous_variant LOW 1287A>G Glu429Glu
M0114404 AFJLOOPB_00017 18014 4 Skin 0.08 protein_coding missense_variant MODERATE 1369C>A Leu457Ile
M0114405 AFJLOOPB_00017 18031 4 Skin 0.08 protein_coding missense_variant MODERATE 1386G>T Leu462Phe
M0114406 AFJLOOPB_00017 18114 7 Skin 0.13 protein_coding missense_variant MODERATE 1469T>A Val490Glu
M0114407 AFJLOOPB_00017 18119 7 Skin 0.13 protein_coding missense_variant MODERATE 1474A>G Asn492Asp
M0114408 AFJLOOPB_00019 18204 5 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -1339G>A None
M0114409 AFJLOOPB_00019 18261 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -1282A>G None
M0114410 AFJLOOPB_00019 18364 6 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -1179G>A None
M0114411 AFJLOOPB_00019 18366 6 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -1177T>C None
M0114412 AFJLOOPB_00011 10782 4 Skin 0.08 protein_coding missense_variant MODERATE 548T>C Val183Ala
M0114413 AFJLOOPB_00012 11749 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -655A>G None
M0114414 AFJLOOPB_00051 48956 3 Skin 0.06 protein_coding synonymous_variant LOW 555T>C Asn185Asn
M0114415 AFJLOOPB_00031 33044 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -175T>C None
M0114416 AFJLOOPB_00031 35213 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -2344A>G None
M0114417 AFJLOOPB_00031 35238 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -2369A>C None
M0114418 AFJLOOPB_00031 35251 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -2382G>A None
M0114419 AFJLOOPB_00017 17077 3 Skin 0.06 protein_coding synonymous_variant LOW 432G>A Ala144Ala
M0114420 AFJLOOPB_00031 32811 3 Skin 0.06 protein_coding missense_variant MODERATE 59T>C Ile20Thr
M0114421 AFJLOOPB_00012 12113 4 Skin 0.08 protein_coding upstream_gene_variant MODIFIER -291T>C None
M0114422 AFJLOOPB_00012 12340 3 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -64C>G None
M0114423 AFJLOOPB_00012 12784 3 Skin 0.06 protein_coding synonymous_variant LOW 381C>T Phe127Phe






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