Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1199
  Reference Plasmid   NZ_CP132345.1
  Reference Plasmid Size   794389
  Reference Plasmid GC Content   0.28
  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
M0199395 EJDBIMAN_00121 157744 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4561T>G None
M0199396 EJDBIMAN_00121 157780 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4597C>A None
M0199397 EJDBIMAN_00121 157810 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4627C>T None
M0199398 EJDBIMAN_00124 158499 3 Gut 0.15 protein_coding synonymous_variant LOW 621A>G Lys207Lys
M0199399 EJDBIMAN_00125 158717 3 Gut 0.15 protein_coding missense_variant MODERATE 59T>C Met20Thr
M0199400 EJDBIMAN_00125 158721 3 Gut 0.15 protein_coding synonymous_variant LOW 63A>C Gly21Gly
M0199401 EJDBIMAN_00125 158752 3 Gut 0.15 protein_coding missense_variant MODERATE 94G>A Asp32Asn
M0199402 EJDBIMAN_00126 159652 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -419G>A None
M0199403 EJDBIMAN_00126 159899 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -172A>T None
M0199404 EJDBIMAN_00126 159976 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -95G>T None
M0199405 EJDBIMAN_00127 160866 3 Gut 0.15 protein_coding synonymous_variant LOW 48G>A Leu16Leu
M0199406 EJDBIMAN_00129 162511 3 Gut 0.15 protein_coding synonymous_variant LOW 228T>C Asp76Asp
M0199407 EJDBIMAN_00129 162515 3 Gut 0.15 protein_coding missense_variant MODERATE 232A>G Asn78Asp
M0199408 EJDBIMAN_00129 162519 3 Gut 0.15 protein_coding missense_variant MODERATE 236C>T Thr79Ile
M0199409 EJDBIMAN_00129 162520 3 Gut 0.15 protein_coding synonymous_variant LOW 237T>C Thr79Thr
M0199410 EJDBIMAN_00129 162523 3 Gut 0.15 protein_coding synonymous_variant LOW 240T>C Phe80Phe
M0199411 EJDBIMAN_00129 162541 3 Gut 0.15 protein_coding synonymous_variant LOW 258G>T Gly86Gly
M0199412 EJDBIMAN_00129 162554 3 Gut 0.15 protein_coding synonymous_variant LOW 271T>C Leu91Leu
M0199413 EJDBIMAN_00129 162566 3 Gut 0.15 protein_coding missense_variant MODERATE 283A>G Ile95Val
M0199414 EJDBIMAN_00129 162574 3 Gut 0.15 protein_coding synonymous_variant LOW 291A>T Val97Val
M0199415 EJDBIMAN_00129 162586 3 Gut 0.15 protein_coding synonymous_variant LOW 303C>T Asn101Asn
M0199416 EJDBIMAN_00057 67547 3 Gut 0.15 protein_coding missense_variant MODERATE 517A>G Lys173Glu
M0199417 EJDBIMAN_00060 71326 3 Gut 0.15 protein_coding synonymous_variant LOW 681T>C Gly227Gly
M0199418 EJDBIMAN_00060 71445 3 Gut 0.15 protein_coding missense_variant MODERATE 562A>G Ile188Val
M0199419 EJDBIMAN_00060 71653 3 Gut 0.15 protein_coding synonymous_variant LOW 354G>T Val118Val
M0199420 EJDBIMAN_00060 71656 3 Gut 0.15 protein_coding synonymous_variant LOW 351T>G Thr117Thr
M0199421 EJDBIMAN_00060 71698 3 Gut 0.15 protein_coding synonymous_variant LOW 309T>C Ser103Ser
M0199422 EJDBIMAN_00060 71968 3 Gut 0.15 protein_coding synonymous_variant LOW 39C>T Ile13Ile
M0199423 EJDBIMAN_00061 73045 3 Gut 0.15 protein_coding synonymous_variant LOW 21G>A Glu7Glu
M0199424 EJDBIMAN_00062 74070 3 Gut 0.15 protein_coding synonymous_variant LOW 525A>T Ala175Ala
M0199425 EJDBIMAN_00060 76052 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4046T>A None
M0199426 EJDBIMAN_00060 76189 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4183C>T None
M0199427 EJDBIMAN_00060 76193 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4187A>G None
M0199428 EJDBIMAN_00097 115227 3 Gut 0.15 protein_coding missense_variant MODERATE 839A>C His280Pro
M0199429 EJDBIMAN_00101 119480 3 Gut 0.15 protein_coding missense_variant MODERATE 830G>C Ser277Thr
M0199430 EJDBIMAN_00101 119664 3 Gut 0.15 protein_coding synonymous_variant LOW 646T>C Leu216Leu
M0199431 EJDBIMAN_00101 119707 3 Gut 0.15 protein_coding synonymous_variant LOW 603A>C Gly201Gly
M0199432 EJDBIMAN_00101 119851 3 Gut 0.15 protein_coding synonymous_variant LOW 459A>T Val153Val
M0199433 EJDBIMAN_00101 119854 3 Gut 0.15 protein_coding synonymous_variant LOW 456G>A Lys152Lys
M0199434 EJDBIMAN_00101 119857 3 Gut 0.15 protein_coding synonymous_variant LOW 453T>G Gly151Gly
M0199435 EJDBIMAN_00101 119860 3 Gut 0.15 protein_coding missense_variant MODERATE 450G>T Glu150Asp
M0199436 EJDBIMAN_00101 120009 3 Gut 0.15 protein_coding missense_variant MODERATE 301G>A Val101Ile
M0199437 EJDBIMAN_00101 120022 3 Gut 0.15 protein_coding missense_variant MODERATE 288A>C Glu96Asp
M0199438 EJDBIMAN_00101 120064 3 Gut 0.15 protein_coding synonymous_variant LOW 246T>C Asp82Asp
M0199439 EJDBIMAN_00101 120233 3 Gut 0.15 protein_coding missense_variant MODERATE 77C>T Ala26Val
M0199440 EJDBIMAN_00097 120443 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4378G>A None
M0199441 EJDBIMAN_00102 120617 3 Gut 0.15 protein_coding missense_variant MODERATE 1188G>T Leu396Phe
M0199442 EJDBIMAN_00102 120914 3 Gut 0.15 protein_coding synonymous_variant LOW 891A>G Gly297Gly
M0199443 EJDBIMAN_00102 120991 3 Gut 0.15 protein_coding synonymous_variant LOW 814T>C Leu272Leu
M0199444 EJDBIMAN_00050 62903 3 Gut 0.15 protein_coding upstream_gene_variant MODIFIER -4797A>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
EJDBIMAN_00684 PHI:9236 CdPpiB (CD630_00330) 82.7 2.3e-293 1 548 1.0000 1.0000 rodents pseudomembranous colitis cyclophilin-type peptidyl-prolyl-cis/trans-isomerase increased virulence (hypervirulence)






        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
EJDBIMAN_00043 ALS18670.1|GT2|GT4 100 0 1 609 1 1
EJDBIMAN_00045 QCJ04401.1|GT4 100 0 1 622 1 1
EJDBIMAN_00181 ANF16373.1|CE8|PL9_1 100 0 1 1365 1 1
EJDBIMAN_00182 AOR96287.1|PL1|PL9_1 100 0 1 1109 1 1
EJDBIMAN_00213 ALS19163.1|GH4 100 0 1 444 1 1
EJDBIMAN_00310 AOR96179.1|GH24 100 0 1 540 1 1
EJDBIMAN_00333 AOR96158.1|GH42 100 0 1 687 1 1
EJDBIMAN_00335 UZT08687.1|GH53 100 1.18e-250 1 326 1 1
EJDBIMAN_00336 ALR90174.1|GH53 100 2.16e-265 1 341 1 1
EJDBIMAN_00370 QUF85315.1|CE4 100 1.11e-186 1 252 1 1
EJDBIMAN_00417 QCJ04716.1|CBM4|GH16_3 100 0 1 1251 1 1
EJDBIMAN_00419 ALR90745.1|GH1 100 0 1 479 1 1
EJDBIMAN_00506 ANF16086.1|GH4 100 1.14999999850097e-315 1 436 1 1
EJDBIMAN_00512 ALS18897.1|GH170 100 4.24e-268 1 360 1 1
EJDBIMAN_00593 ANF16009.1|GH13_29 100 0 1 552 1 1
EJDBIMAN_00657 QMW92969.1|CE4 100 2.38e-199 10 324 0.9722 1
EJDBIMAN_00684 ANF15928.1|GH43_11 100 0 1 548 1 1
EJDBIMAN_00685 AOR95840.1|GH5_44 100 6.44e-308 1 395 1 1
EJDBIMAN_00696 ALR90494.1|GH38 100 0 1 870 1 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
EJDBIMAN_00075 4.A.6.1.15 75.9 1.7e-136 1 303 1.0000 0.9439 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
EJDBIMAN_00076 4.A.6.1.6 76 1.1e-107 1 268 1.0000 0.8364 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family
EJDBIMAN_00077 4.A.6.1.6 72.9 1e-136 1 325 1.0000 1.0000 4 Group Translocators 4.A Phosphotransfer-driven Group Translocators (PTS) 4.A.6 The PTS Mannose-Fructose-Sorbose (Man) Family