Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1277
  Reference Plasmid   NZ_CP146873.1
  Reference Plasmid Size   66660
  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
M0205269 IBKAIDNM_00041 37444 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -4916T>C None
M0205270 IBKAIDNM_00042 37632 5 Gut 0.45 protein_coding upstream_gene_variant MODIFIER -4814C>T None
M0205271 IBKAIDNM_00042 37636 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -4818T>C None
M0205272 IBKAIDNM_00051 37734 3 Gut 0.27 protein_coding synonymous_variant LOW 30T>C Phe10Phe
M0205273 IBKAIDNM_00051 37752 3 Gut 0.27 protein_coding synonymous_variant LOW 48G>T Ser16Ser
M0205274 IBKAIDNM_00051 37782 5 Gut 0.45 protein_coding synonymous_variant LOW 78G>A Lys26Lys
M0205275 IBKAIDNM_00051 37785 3 Gut 0.27 protein_coding synonymous_variant LOW 81A>G Glu27Glu
M0205276 IBKAIDNM_00051 37795 3 Gut 0.27 protein_coding synonymous_variant LOW 91A>C Arg31Arg
M0205277 IBKAIDNM_00051 37797 3 Gut 0.27 protein_coding synonymous_variant LOW 93G>A Arg31Arg
M0205278 IBKAIDNM_00051 37846 5 Gut 0.45 protein_coding missense_variant MODERATE 142T>C Tyr48His
M0205279 IBKAIDNM_00051 37914 5 Gut 0.45 protein_coding synonymous_variant LOW 210T>C Thr70Thr
M0205280 IBKAIDNM_00051 37935 5 Gut 0.45 protein_coding synonymous_variant LOW 231G>A Ala77Ala
M0205281 IBKAIDNM_00051 37947 5 Gut 0.45 protein_coding synonymous_variant LOW 243A>T Ser81Ser
M0205282 IBKAIDNM_00051 37950 5 Gut 0.45 protein_coding synonymous_variant LOW 246T>C Ser82Ser
M0205283 IBKAIDNM_00051 37967 5 Gut 0.45 protein_coding missense_variant MODERATE 263A>G Tyr88Cys
M0205284 IBKAIDNM_00050 37339 3 Gut 0.27 protein_coding missense_variant MODERATE 412A>G Thr138Ala
M0205285 IBKAIDNM_00041 37511 4 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -4983T>C None
M0205286 IBKAIDNM_00052 39060 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -192T>C None
M0205287 IBKAIDNM_00052 39065 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -187T>C None
M0205288 IBKAIDNM_00052 39076 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -176C>T None
M0205289 IBKAIDNM_00052 39079 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -173C>T None
M0205290 IBKAIDNM_00052 39108 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -144C>T None
M0205291 IBKAIDNM_00052 39125 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -127C>A None
M0205292 IBKAIDNM_00052 39187 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -65A>G None
M0205293 IBKAIDNM_00052 39234 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -18G>A None
M0205294 IBKAIDNM_00052 39247 3 Gut 0.27 protein_coding upstream_gene_variant MODIFIER -5C>G None
M0205295 IBKAIDNM_00052 39279 3 Gut 0.27 protein_coding missense_variant MODERATE 28A>G Thr10Ala
M0205296 IBKAIDNM_00052 39281 3 Gut 0.27 protein_coding synonymous_variant LOW 30T>C Thr10Thr
M0205297 IBKAIDNM_00052 39446 3 Gut 0.27 protein_coding missense_variant MODERATE 195C>A Asn65Lys
M0205298 IBKAIDNM_00052 39554 3 Gut 0.27 protein_coding synonymous_variant LOW 303A>T Ser101Ser
M0205299 IBKAIDNM_00052 39578 3 Gut 0.27 protein_coding missense_variant MODERATE 327T>A Asn109Lys
M0205300 IBKAIDNM_00052 39588 3 Gut 0.27 protein_coding synonymous_variant LOW 337T>C Leu113Leu
M0205301 IBKAIDNM_00052 39667 3 Gut 0.27 protein_coding missense_variant MODERATE 416C>A Ala139Glu
M0205302 IBKAIDNM_00052 39722 3 Gut 0.27 protein_coding synonymous_variant LOW 471T>C Asn157Asn
M0205303 IBKAIDNM_00052 39845 3 Gut 0.27 protein_coding synonymous_variant LOW 594C>T Asp198Asp
M0205304 IBKAIDNM_00052 39869 3 Gut 0.27 protein_coding synonymous_variant LOW 618A>G Leu206Leu
M0205305 IBKAIDNM_00052 39872 3 Gut 0.27 protein_coding synonymous_variant LOW 621T>C Asp207Asp
M0205306 IBKAIDNM_00052 39950 3 Gut 0.27 protein_coding synonymous_variant LOW 699G>A Ala233Ala
M0205307 IBKAIDNM_00052 40029 3 Gut 0.27 protein_coding missense_variant MODERATE 778G>A Ala260Thr
M0205308 IBKAIDNM_00052 40031 3 Gut 0.27 protein_coding synonymous_variant LOW 780A>G Ala260Ala
M0205309 IBKAIDNM_00052 40069 3 Gut 0.27 protein_coding missense_variant MODERATE 818C>T Thr273Ile
M0205310 IBKAIDNM_00052 40101 3 Gut 0.27 protein_coding missense_variant MODERATE 850G>A Asp284Asn
M0205311 IBKAIDNM_00052 40148 3 Gut 0.27 protein_coding missense_variant MODERATE 897T>G Phe299Leu
M0205312 IBKAIDNM_00052 40151 3 Gut 0.27 protein_coding synonymous_variant LOW 900T>C Ser300Ser
M0205313 IBKAIDNM_00052 40207 3 Gut 0.27 protein_coding missense_variant MODERATE 956C>T Thr319Ile
M0205314 IBKAIDNM_00052 40219 3 Gut 0.27 protein_coding missense_variant MODERATE 968T>C Ile323Thr
M0205315 IBKAIDNM_00053 40251 3 Gut 0.27 protein_coding missense_variant MODERATE 5A>G Asn2Ser
M0205316 IBKAIDNM_00053 40364 3 Gut 0.27 protein_coding missense_variant MODERATE 118A>G Asn40Asp
M0205317 IBKAIDNM_00053 40384 3 Gut 0.27 protein_coding synonymous_variant LOW 138C>A Thr46Thr
M0205318 IBKAIDNM_00053 40528 3 Gut 0.27 protein_coding synonymous_variant LOW 282G>A Thr94Thr
M0205319 IBKAIDNM_00053 40835 3 Gut 0.27 protein_coding missense_variant MODERATE 589A>G Ile197Val
M0205320 IBKAIDNM_00053 40855 3 Gut 0.27 protein_coding synonymous_variant LOW 609A>C Pro203Pro
M0205321 IBKAIDNM_00053 40864 3 Gut 0.27 protein_coding synonymous_variant LOW 618C>T Asn206Asn
M0205322 IBKAIDNM_00053 40999 3 Gut 0.27 protein_coding synonymous_variant LOW 753C>T Tyr251Tyr
M0205323 IBKAIDNM_00053 41014 3 Gut 0.27 protein_coding synonymous_variant LOW 768T>C Leu256Leu
M0205324 IBKAIDNM_00053 41107 3 Gut 0.27 protein_coding missense_variant MODERATE 861A>C Gln287His
M0205325 IBKAIDNM_00053 41120 3 Gut 0.27 protein_coding missense_variant MODERATE 874G>A Ala292Thr
M0205326 IBKAIDNM_00054 41235 4 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -183C>T None
M0205327 IBKAIDNM_00054 41271 4 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -147T>C None
M0205328 IBKAIDNM_00054 41279 4 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -139G>A None
M0205329 IBKAIDNM_00054 41291 4 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -127T>C None
M0205330 IBKAIDNM_00054 41294 4 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -124C>T None
M0205331 IBKAIDNM_00054 41300 4 Gut 0.36 protein_coding upstream_gene_variant MODIFIER -118T>C None
M0205332 IBKAIDNM_00054 41444 4 Gut 0.36 protein_coding synonymous_variant LOW 27T>G Thr9Thr
M0205333 IBKAIDNM_00054 41446 4 Gut 0.36 protein_coding missense_variant MODERATE 29G>A Arg10His
M0205334 IBKAIDNM_00054 41474 4 Gut 0.36 protein_coding synonymous_variant LOW 57C>T Gly19Gly
M0205335 IBKAIDNM_00054 41480 4 Gut 0.36 protein_coding synonymous_variant LOW 63A>G Glu21Glu
M0205336 IBKAIDNM_00054 41486 4 Gut 0.36 protein_coding synonymous_variant LOW 69G>A Pro23Pro
M0205337 IBKAIDNM_00054 41501 4 Gut 0.36 protein_coding synonymous_variant LOW 84C>T Gly28Gly
M0205338 IBKAIDNM_00054 41528 4 Gut 0.36 protein_coding synonymous_variant LOW 111A>G Gly37Gly
M0205339 IBKAIDNM_00054 41576 4 Gut 0.36 protein_coding synonymous_variant LOW 159G>T Leu53Leu
M0205340 IBKAIDNM_00054 41610 4 Gut 0.36 protein_coding missense_variant MODERATE 193G>T Ala65Ser
M0205341 IBKAIDNM_00054 41618 4 Gut 0.36 protein_coding synonymous_variant LOW 201A>G Ser67Ser
M0205342 IBKAIDNM_00055 41838 4 Gut 0.36 protein_coding missense_variant MODERATE 35G>A Arg12Lys
M0205343 IBKAIDNM_00055 41923 4 Gut 0.36 protein_coding missense_variant MODERATE 120A>C Glu40Asp






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
IBKAIDNM_00031 VFG006022 Capsule 79.6 8.9e-168 2 339 0.9883 0.9713 Immune modulation dTDP-glucose 4,6-dehydratase prediction
IBKAIDNM_00033 VFG005898 Capsule 77 4.3e-131 1 287 0.9931 0.9931 Immune modulation glucose-1-phosphate thymidylyltransferase RfbA prediction







        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
IBKAIDNM_00004 AGL62902.2|GH36 98.6 9.59e-157 1 222 1 0.7184
IBKAIDNM_00051 QHM64245.1|GT4 99.2 7.13e-274 1 374 1 1
IBKAIDNM_00052 QHM64246.1|GT2 99.7 1.37e-242 1 330 1 1
IBKAIDNM_00053 QHM64247.1|GT2 97.5 5.93e-231 1 325 0.9909 0.9969





        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