Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C576
  Reference Plasmid   NZ_CP033739.1
  Reference Plasmid Size   68599
  Reference Plasmid GC Content   0.35
  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
M0168799 CINPICNN_00068 58715 4 Gut 0.13 protein_coding missense_variant MODERATE 634C>T His212Tyr
M0168800 CINPICNN_00059 58148 4 Gut 0.13 protein_coding upstream_gene_variant MODIFIER -3701G>T None
M0168801 CINPICNN_00020 14155 4 Gut 0.13 protein_coding missense_variant MODERATE 458T>G Ile153Ser
M0168802 CINPICNN_00067 62772 7 Gut 0.22 protein_coding upstream_gene_variant MODIFIER -4796G>T None
M0168803 CINPICNN_00067 62851 3 Gut 0.09 protein_coding upstream_gene_variant MODIFIER -4875G>A None
M0168804 CINPICNN_00068 58419 4 Gut 0.13 protein_coding synonymous_variant LOW 930G>C Gly310Gly
M0168805 CINPICNN_00068 58437 4 Gut 0.13 protein_coding synonymous_variant LOW 912G>A Leu304Leu
M0168806 CINPICNN_00068 58476 4 Gut 0.13 protein_coding synonymous_variant LOW 873A>G Lys291Lys
M0168807 CINPICNN_00068 58483 4 Gut 0.13 protein_coding missense_variant MODERATE 866A>G His289Arg
M0168808 CINPICNN_00068 58515 3 Gut 0.09 protein_coding synonymous_variant LOW 834A>G Thr278Thr
M0168809 CINPICNN_00068 58551 4 Gut 0.13 protein_coding synonymous_variant LOW 798G>A Lys266Lys
M0168810 CINPICNN_00068 58557 4 Gut 0.13 protein_coding synonymous_variant LOW 792A>G Lys264Lys
M0168811 CINPICNN_00068 58686 3 Gut 0.09 protein_coding synonymous_variant LOW 663A>G Lys221Lys
M0168812 CINPICNN_00068 58740 4 Gut 0.13 protein_coding synonymous_variant LOW 609T>C Ile203Ile
M0168813 CINPICNN_00068 58743 3 Gut 0.09 protein_coding synonymous_variant LOW 606T>C Phe202Phe
M0168814 CINPICNN_00068 58749 4 Gut 0.13 protein_coding missense_variant MODERATE 600G>C Leu200Phe
M0168815 CINPICNN_00068 58751 4 Gut 0.13 protein_coding synonymous_variant LOW 598T>C Leu200Leu
M0168816 CINPICNN_00068 58816 4 Gut 0.13 protein_coding missense_variant MODERATE 533A>G Asn178Ser
M0168817 CINPICNN_00068 58839 3 Gut 0.09 protein_coding synonymous_variant LOW 510G>A Lys170Lys
M0168818 CINPICNN_00068 58848 3 Gut 0.09 protein_coding synonymous_variant LOW 501C>T Cys167Cys
M0168819 CINPICNN_00068 58911 3 Gut 0.09 protein_coding synonymous_variant LOW 438T>C Asn146Asn
M0168820 CINPICNN_00068 58914 3 Gut 0.09 protein_coding synonymous_variant LOW 435C>T Tyr145Tyr
M0168821 CINPICNN_00068 58968 4 Gut 0.13 protein_coding synonymous_variant LOW 381G>A Lys127Lys
M0168822 CINPICNN_00068 58971 4 Gut 0.13 protein_coding synonymous_variant LOW 378C>A Ile126Ile
M0168823 CINPICNN_00068 58974 4 Gut 0.13 protein_coding synonymous_variant LOW 375A>G Thr125Thr
M0168824 CINPICNN_00068 59001 4 Gut 0.13 protein_coding synonymous_variant LOW 348T>C Asp116Asp
M0168825 CINPICNN_00068 59041 3 Gut 0.09 protein_coding missense_variant MODERATE 308T>A Met103Lys
M0168826 CINPICNN_00068 59042 3 Gut 0.09 protein_coding missense_variant MODERATE 307A>C Met103Leu
M0168827 CINPICNN_00068 59085 3 Gut 0.09 protein_coding synonymous_variant LOW 264T>C Tyr88Tyr
M0168828 CINPICNN_00068 59202 4 Gut 0.13 protein_coding synonymous_variant LOW 147A>G Pro49Pro
M0168829 CINPICNN_00068 59259 4 Gut 0.13 protein_coding synonymous_variant LOW 90A>G Val30Val
M0168830 CINPICNN_00068 59325 4 Gut 0.13 protein_coding synonymous_variant LOW 24T>C Ser8Ser
M0168831 CINPICNN_00069 59456 3 Gut 0.09 protein_coding missense_variant MODERATE 175C>A Gln59Lys
M0168832 CINPICNN_00069 59603 4 Gut 0.13 protein_coding missense_variant MODERATE 28A>G Lys10Glu
M0168833 CINPICNN_00069 59610 3 Gut 0.09 protein_coding synonymous_variant LOW 21T>C Pro7Pro
M0168834 CINPICNN_00070 59747 3 Gut 0.09 protein_coding synonymous_variant LOW 894A>G Lys298Lys
M0168835 CINPICNN_00070 59776 3 Gut 0.09 protein_coding synonymous_variant LOW 865T>C Leu289Leu
M0168836 CINPICNN_00070 59804 3 Gut 0.09 protein_coding synonymous_variant LOW 837T>C Phe279Phe
M0168837 CINPICNN_00070 59908 3 Gut 0.09 protein_coding missense_variant MODERATE 733A>G Lys245Glu
M0168838 CINPICNN_00070 60000 3 Gut 0.09 protein_coding missense_variant MODERATE 641G>A Ser214Asn
M0168839 CINPICNN_00070 60007 3 Gut 0.09 protein_coding synonymous_variant LOW 634C>T Leu212Leu
M0168840 CINPICNN_00070 60008 3 Gut 0.09 protein_coding synonymous_variant LOW 633G>A Leu211Leu
M0168841 CINPICNN_00070 60011 3 Gut 0.09 protein_coding synonymous_variant LOW 630A>G Gly210Gly
M0168842 CINPICNN_00070 60086 3 Gut 0.09 protein_coding synonymous_variant LOW 555A>G Leu185Leu
M0168843 CINPICNN_00070 60188 3 Gut 0.09 protein_coding synonymous_variant LOW 453A>G Ser151Ser
M0168844 CINPICNN_00070 60212 3 Gut 0.09 protein_coding synonymous_variant LOW 429C>T Thr143Thr
M0168845 CINPICNN_00070 60292 3 Gut 0.09 protein_coding missense_variant MODERATE 349A>G Lys117Glu
M0168846 CINPICNN_00070 60359 3 Gut 0.09 protein_coding synonymous_variant LOW 282G>T Leu94Leu
M0168847 CINPICNN_00070 60425 3 Gut 0.09 protein_coding synonymous_variant LOW 216T>C Thr72Thr
M0168848 CINPICNN_00065 61012 3 Gut 0.09 protein_coding upstream_gene_variant MODIFIER -4894T>G None
M0168849 CINPICNN_00019 13733 3 Gut 0.09 protein_coding missense_variant MODERATE 284C>T Pro95Leu
M0168850 CINPICNN_00020 14170 3 Gut 0.09 protein_coding missense_variant MODERATE 443T>A Ile148Asn
M0168851 CINPICNN_00023 16345 3 Gut 0.09 protein_coding missense_variant MODERATE 217A>G Met73Val
M0168852 CINPICNN_00059 58053 3 Gut 0.09 protein_coding upstream_gene_variant MODIFIER -3606T>G None
M0168853 CINPICNN_00068 58284 3 Gut 0.09 protein_coding synonymous_variant LOW 1065T>A Ala355Ala
M0168854 CINPICNN_00068 58302 3 Gut 0.09 protein_coding synonymous_variant LOW 1047A>G Thr349Thr
M0168855 CINPICNN_00068 58373 3 Gut 0.09 protein_coding missense_variant MODERATE 976A>G Ile326Val
M0168856 CINPICNN_00068 58380 3 Gut 0.09 protein_coding synonymous_variant LOW 969T>C Val323Val
M0168857 CINPICNN_00068 58395 3 Gut 0.09 protein_coding synonymous_variant LOW 954T>C Tyr318Tyr
M0168858 CINPICNN_00068 58440 3 Gut 0.09 protein_coding synonymous_variant LOW 909T>C Phe303Phe
M0168859 CINPICNN_00068 58554 3 Gut 0.09 protein_coding synonymous_variant LOW 795A>G Thr265Thr
M0168860 CINPICNN_00068 58598 3 Gut 0.09 protein_coding synonymous_variant LOW 751T>C Leu251Leu
M0168861 CINPICNN_00068 58953 3 Gut 0.09 protein_coding synonymous_variant LOW 396G>A Lys132Lys
M0168862 CINPICNN_00068 59058 3 Gut 0.09 protein_coding synonymous_variant LOW 291C>T Asn97Asn






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
CINPICNN_00073 ARO:3002867 100 2.57e-118 1 164 1.0000 1.0000 diaminopyrimidine antibiotic trimethoprim resistant dihydrofolate reductase dfr antibiotic target replacement






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
CINPICNN_00012 QGS36067.1|GH1 100 0 1 479 1 1
CINPICNN_00047 AYY08399.1|CBM22|CBM9|GH10 100 0 1 858 1 1
CINPICNN_00050 AYY08402.1|GH65 100 0 1 764 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
CINPICNN_00054 3.A.7.14.1 95.4 0 8 661 0.9894 3.5738 3 Primary Active Transporters 3.A P-P-bond-hydrolysis-driven transporters 3.A.7 The Type IV (Conjugal DNA-Protein Transfer or VirB) Secretory Pathway (IVSP) Family