Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C406
  Reference Plasmid   NZ_CP007124.1
  Reference Plasmid Size   55121
  Reference Plasmid GC Content   0.44
  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
M0163851 EIAGCJEB_00026 22651 3 Gut 0.75 protein_coding synonymous_variant LOW 315G>A Arg105Arg
M0163852 EIAGCJEB_00026 22654 3 Gut 0.75 protein_coding synonymous_variant LOW 312T>C Phe104Phe
M0163853 EIAGCJEB_00026 22699 3 Gut 0.75 protein_coding synonymous_variant LOW 267G>T Val89Val
M0163854 EIAGCJEB_00026 22702 3 Gut 0.75 protein_coding synonymous_variant LOW 264T>C Thr88Thr
M0163855 EIAGCJEB_00026 22705 3 Gut 0.75 protein_coding synonymous_variant LOW 261T>C Phe87Phe
M0163856 EIAGCJEB_00026 22708 3 Gut 0.75 protein_coding synonymous_variant LOW 258G>A Gln86Gln
M0163857 EIAGCJEB_00026 22720 3 Gut 0.75 protein_coding synonymous_variant LOW 246A>G Gln82Gln
M0163858 EIAGCJEB_00026 22724 3 Gut 0.75 protein_coding missense_variant MODERATE 242C>T Thr81Ile
M0163859 EIAGCJEB_00026 22725 3 Gut 0.75 protein_coding missense_variant MODERATE 241A>G Thr81Ala
M0163860 EIAGCJEB_00026 22726 3 Gut 0.75 protein_coding synonymous_variant LOW 240T>C Arg80Arg
M0163861 EIAGCJEB_00026 22732 3 Gut 0.75 protein_coding synonymous_variant LOW 234G>A Thr78Thr
M0163862 EIAGCJEB_00026 22738 3 Gut 0.75 protein_coding synonymous_variant LOW 228G>A Thr76Thr
M0163863 EIAGCJEB_00026 22849 3 Gut 0.75 protein_coding synonymous_variant LOW 117A>G Arg39Arg
M0163864 EIAGCJEB_00026 22965 3 Gut 0.75 protein_coding start_lost HIGH 1A>G Met1?
M0163865 EIAGCJEB_00027 23021 3 Gut 0.75 protein_coding synonymous_variant LOW 369A>G Gln123Gln
M0163866 EIAGCJEB_00027 23081 3 Gut 0.75 protein_coding synonymous_variant LOW 309A>G Leu103Leu
M0163867 EIAGCJEB_00027 23084 3 Gut 0.75 protein_coding synonymous_variant LOW 306C>T Asn102Asn
M0163868 EIAGCJEB_00027 23087 3 Gut 0.75 protein_coding synonymous_variant LOW 303T>C Asp101Asp
M0163869 EIAGCJEB_00027 23096 3 Gut 0.75 protein_coding synonymous_variant LOW 294T>C Asn98Asn
M0163870 EIAGCJEB_00027 23102 3 Gut 0.75 protein_coding synonymous_variant LOW 288C>T Val96Val
M0163871 EIAGCJEB_00027 23114 3 Gut 0.75 protein_coding synonymous_variant LOW 276T>C Asp92Asp
M0163872 EIAGCJEB_00027 23126 3 Gut 0.75 protein_coding synonymous_variant LOW 264A>G Leu88Leu
M0163873 EIAGCJEB_00027 23128 3 Gut 0.75 protein_coding synonymous_variant LOW 262C>T Leu88Leu
M0163874 EIAGCJEB_00027 23213 3 Gut 0.75 protein_coding synonymous_variant LOW 177T>C Val59Val
M0163875 EIAGCJEB_00027 23227 3 Gut 0.75 protein_coding missense_variant MODERATE 163C>A Gln55Lys
M0163876 EIAGCJEB_00027 23231 3 Gut 0.75 protein_coding synonymous_variant LOW 159T>G Thr53Thr
M0163877 EIAGCJEB_00027 23244 3 Gut 0.75 protein_coding missense_variant MODERATE 146T>G Ile49Ser
M0163878 EIAGCJEB_00027 23258 3 Gut 0.75 protein_coding synonymous_variant LOW 132G>A Glu44Glu
M0163879 EIAGCJEB_00027 23279 3 Gut 0.75 protein_coding synonymous_variant LOW 111T>C Ala37Ala
M0163880 EIAGCJEB_00027 23308 3 Gut 0.75 protein_coding missense_variant MODERATE 82G>C Glu28Gln
M0163881 EIAGCJEB_00030 24670 3 Gut 0.75 protein_coding missense_variant MODERATE 592T>G Tyr198Asp
M0163882 EIAGCJEB_00030 25058 3 Gut 0.75 protein_coding synonymous_variant LOW 204G>A Thr68Thr
M0163883 EIAGCJEB_00030 25088 3 Gut 0.75 protein_coding synonymous_variant LOW 174T>C Asn58Asn
M0163884 EIAGCJEB_00031 25379 3 Gut 0.75 protein_coding missense_variant MODERATE 292G>A Ala98Thr
M0163885 EIAGCJEB_00031 25413 3 Gut 0.75 protein_coding synonymous_variant LOW 258A>G Glu86Glu
M0163886 EIAGCJEB_00031 25455 3 Gut 0.75 protein_coding synonymous_variant LOW 216A>T Arg72Arg
M0163887 EIAGCJEB_00032 25802 3 Gut 0.75 protein_coding synonymous_variant LOW 510T>C Tyr170Tyr
M0163888 EIAGCJEB_00032 25913 3 Gut 0.75 protein_coding missense_variant MODERATE 399T>G Ile133Met
M0163889 EIAGCJEB_00033 26812 3 Gut 0.75 protein_coding missense_variant MODERATE 526G>A Ala176Thr
M0163890 EIAGCJEB_00033 26828 3 Gut 0.75 protein_coding synonymous_variant LOW 510C>T Gly170Gly
M0163891 EIAGCJEB_00033 26856 3 Gut 0.75 protein_coding missense_variant MODERATE 482G>A Arg161Lys
M0163892 EIAGCJEB_00033 26858 3 Gut 0.75 protein_coding synonymous_variant LOW 480A>G Glu160Glu
M0163893 EIAGCJEB_00034 27372 3 Gut 0.75 protein_coding missense_variant MODERATE 1896T>G Asn632Lys
M0163894 EIAGCJEB_00034 27771 3 Gut 0.75 protein_coding synonymous_variant LOW 1497A>G Leu499Leu
M0163895 EIAGCJEB_00034 27918 3 Gut 0.75 protein_coding synonymous_variant LOW 1350A>G Ala450Ala
M0163896 EIAGCJEB_00034 27954 3 Gut 0.75 protein_coding synonymous_variant LOW 1314G>T Gly438Gly
M0163897 EIAGCJEB_00034 28404 3 Gut 0.75 protein_coding synonymous_variant LOW 864T>G Gly288Gly
M0163898 EIAGCJEB_00034 28506 3 Gut 0.75 protein_coding synonymous_variant LOW 762A>G Thr254Thr
M0163899 EIAGCJEB_00034 28524 3 Gut 0.75 protein_coding synonymous_variant LOW 744A>G Leu248Leu
M0163900 EIAGCJEB_00034 28571 3 Gut 0.75 protein_coding missense_variant MODERATE 697A>G Ile233Val
M0163901 EIAGCJEB_00034 28608 3 Gut 0.75 protein_coding synonymous_variant LOW 660A>G Thr220Thr
M0163902 EIAGCJEB_00034 28691 3 Gut 0.75 protein_coding synonymous_variant LOW 577T>C Leu193Leu
M0163903 EIAGCJEB_00034 28707 3 Gut 0.75 protein_coding synonymous_variant LOW 561A>G Ala187Ala
M0163904 EIAGCJEB_00034 28722 3 Gut 0.75 protein_coding synonymous_variant LOW 546A>G Arg182Arg
M0163905 EIAGCJEB_00034 28731 3 Gut 0.75 protein_coding synonymous_variant LOW 537C>T Gly179Gly
M0163906 EIAGCJEB_00034 28785 3 Gut 0.75 protein_coding synonymous_variant LOW 483C>T Ser161Ser
M0163907 EIAGCJEB_00034 28813 3 Gut 0.75 protein_coding missense_variant MODERATE 455G>A Arg152Gln
M0163908 EIAGCJEB_00034 28884 3 Gut 0.75 protein_coding synonymous_variant LOW 384T>C Thr128Thr
M0163909 EIAGCJEB_00034 29226 3 Gut 0.75 protein_coding missense_variant MODERATE 42A>T Leu14Phe
M0163910 EIAGCJEB_00037 31123 3 Gut 0.75 protein_coding synonymous_variant LOW 1104A>G Ala368Ala
M0163911 EIAGCJEB_00037 31266 3 Gut 0.75 protein_coding missense_variant MODERATE 961G>T Ala321Ser
M0163912 EIAGCJEB_00037 31489 3 Gut 0.75 protein_coding synonymous_variant LOW 738T>G Ala246Ala
M0163913 EIAGCJEB_00037 31683 3 Gut 0.75 protein_coding missense_variant MODERATE 544A>C Met182Leu
M0163914 EIAGCJEB_00037 31720 3 Gut 0.75 protein_coding synonymous_variant LOW 507G>A Thr169Thr
M0163915 EIAGCJEB_00037 31726 3 Gut 0.75 protein_coding synonymous_variant LOW 501T>C Ile167Ile
M0163916 EIAGCJEB_00037 31930 3 Gut 0.75 protein_coding synonymous_variant LOW 297A>C Ile99Ile
M0163917 EIAGCJEB_00037 31958 3 Gut 0.75 protein_coding missense_variant MODERATE 269A>G His90Arg
M0163918 EIAGCJEB_00037 31990 3 Gut 0.75 protein_coding synonymous_variant LOW 237G>T Gly79Gly
M0163919 EIAGCJEB_00037 31993 3 Gut 0.75 protein_coding synonymous_variant LOW 234T>G Leu78Leu
M0163920 EIAGCJEB_00037 31995 3 Gut 0.75 protein_coding missense_variant MODERATE 232C>T Leu78Phe
M0163921 EIAGCJEB_00037 32020 3 Gut 0.75 protein_coding synonymous_variant LOW 207A>G Gln69Gln
M0163922 EIAGCJEB_00037 32119 3 Gut 0.75 protein_coding synonymous_variant LOW 108A>G Ala36Ala
M0163923 EIAGCJEB_00038 32313 3 Gut 0.75 protein_coding synonymous_variant LOW 2367T>A Ala789Ala
M0163924 EIAGCJEB_00038 33003 3 Gut 0.75 protein_coding synonymous_variant LOW 1677G>T Thr559Thr
M0163925 EIAGCJEB_00038 33018 3 Gut 0.75 protein_coding synonymous_variant LOW 1662T>C Gly554Gly
M0163926 EIAGCJEB_00038 33159 3 Gut 0.75 protein_coding synonymous_variant LOW 1521A>C Ile507Ile
M0163927 EIAGCJEB_00038 33165 3 Gut 0.75 protein_coding synonymous_variant LOW 1515T>C Ala505Ala
M0163928 EIAGCJEB_00038 33429 3 Gut 0.75 protein_coding synonymous_variant LOW 1251T>C Tyr417Tyr
M0163929 EIAGCJEB_00038 33435 3 Gut 0.75 protein_coding synonymous_variant LOW 1245T>C Ile415Ile
M0163930 EIAGCJEB_00038 34056 4 Gut 1.00 protein_coding synonymous_variant LOW 624T>C Ser208Ser
M0163931 EIAGCJEB_00038 34137 3 Gut 0.75 protein_coding synonymous_variant LOW 543C>T Asn181Asn
M0163932 EIAGCJEB_00038 34427 3 Gut 0.75 protein_coding missense_variant MODERATE 253A>G Ile85Val
M0163933 EIAGCJEB_00039 34865 3 Gut 0.75 protein_coding synonymous_variant LOW 420T>C Val140Val
M0163934 EIAGCJEB_00039 34867 3 Gut 0.75 protein_coding missense_variant MODERATE 418G>A Val140Ile
M0163935 EIAGCJEB_00039 34871 3 Gut 0.75 protein_coding synonymous_variant LOW 414A>G Ala138Ala
M0163936 EIAGCJEB_00039 34878 3 Gut 0.75 protein_coding missense_variant MODERATE 407C>T Ala136Val
M0163937 EIAGCJEB_00039 34880 3 Gut 0.75 protein_coding synonymous_variant LOW 405G>A Ala135Ala
M0163938 EIAGCJEB_00039 34889 3 Gut 0.75 protein_coding synonymous_variant LOW 396C>T Leu132Leu
M0163939 EIAGCJEB_00039 34907 3 Gut 0.75 protein_coding synonymous_variant LOW 378C>A Gly126Gly
M0163940 EIAGCJEB_00039 34914 3 Gut 0.75 protein_coding missense_variant MODERATE 371G>A Arg124Gln
M0163941 EIAGCJEB_00039 34919 3 Gut 0.75 protein_coding synonymous_variant LOW 366C>T Phe122Phe
M0163942 EIAGCJEB_00039 34931 3 Gut 0.75 protein_coding synonymous_variant LOW 354A>G Leu118Leu
M0163943 EIAGCJEB_00039 35009 3 Gut 0.75 protein_coding synonymous_variant LOW 276A>G Leu92Leu
M0163944 EIAGCJEB_00039 35012 3 Gut 0.75 protein_coding synonymous_variant LOW 273T>C Ala91Ala
M0163945 EIAGCJEB_00040 35302 3 Gut 0.75 protein_coding synonymous_variant LOW 411T>C Gly137Gly
M0163946 EIAGCJEB_00041 36055 3 Gut 0.75 protein_coding synonymous_variant LOW 1227C>T Phe409Phe
M0163947 EIAGCJEB_00041 36067 3 Gut 0.75 protein_coding synonymous_variant LOW 1215C>T Thr405Thr
M0163948 EIAGCJEB_00041 36079 3 Gut 0.75 protein_coding synonymous_variant LOW 1203G>A Pro401Pro
M0163949 EIAGCJEB_00041 36082 3 Gut 0.75 protein_coding synonymous_variant LOW 1200C>T Asp400Asp
M0163950 EIAGCJEB_00041 36285 3 Gut 0.75 protein_coding missense_variant MODERATE 997G>A Val333Ile
M0163951 EIAGCJEB_00041 36286 3 Gut 0.75 protein_coding synonymous_variant LOW 996C>T Asp332Asp
M0163952 EIAGCJEB_00041 36290 3 Gut 0.75 protein_coding missense_variant MODERATE 992G>A Arg331Lys
M0163953 EIAGCJEB_00041 36295 3 Gut 0.75 protein_coding synonymous_variant LOW 987G>A Leu329Leu
M0163954 EIAGCJEB_00041 36301 3 Gut 0.75 protein_coding synonymous_variant LOW 981C>T Gly327Gly
M0163955 EIAGCJEB_00041 36325 3 Gut 0.75 protein_coding synonymous_variant LOW 957T>C Val319Val
M0163956 EIAGCJEB_00041 36336 3 Gut 0.75 protein_coding missense_variant MODERATE 946C>G Leu316Val
M0163957 EIAGCJEB_00041 36337 3 Gut 0.75 protein_coding synonymous_variant LOW 945T>C Pro315Pro
M0163958 EIAGCJEB_00041 36415 3 Gut 0.75 protein_coding synonymous_variant LOW 867T>C Arg289Arg
M0163959 EIAGCJEB_00041 36632 3 Gut 0.75 protein_coding missense_variant MODERATE 650T>C Ile217Thr
M0163960 EIAGCJEB_00041 36949 3 Gut 0.75 protein_coding synonymous_variant LOW 333C>T Ala111Ala
M0163961 EIAGCJEB_00041 36951 3 Gut 0.75 protein_coding missense_variant MODERATE 331G>A Ala111Thr
M0163962 EIAGCJEB_00041 36961 3 Gut 0.75 protein_coding synonymous_variant LOW 321T>C Thr107Thr
M0163963 EIAGCJEB_00041 36963 3 Gut 0.75 protein_coding missense_variant MODERATE 319A>G Thr107Ala
M0163964 EIAGCJEB_00041 36975 3 Gut 0.75 protein_coding missense_variant MODERATE 307G>A Asp103Asn
M0163965 EIAGCJEB_00041 36987 3 Gut 0.75 protein_coding missense_variant MODERATE 295A>G Ile99Val
M0163966 EIAGCJEB_00041 36989 3 Gut 0.75 protein_coding missense_variant MODERATE 293A>G Asn98Ser
M0163967 EIAGCJEB_00041 37015 3 Gut 0.75 protein_coding synonymous_variant LOW 267T>C Asp89Asp
M0163968 EIAGCJEB_00041 37022 3 Gut 0.75 protein_coding missense_variant MODERATE 260A>G Asn87Ser
M0163969 EIAGCJEB_00041 37036 3 Gut 0.75 protein_coding synonymous_variant LOW 246T>C Ser82Ser
M0163970 EIAGCJEB_00041 37039 3 Gut 0.75 protein_coding synonymous_variant LOW 243T>C Ser81Ser
M0163971 EIAGCJEB_00041 37042 3 Gut 0.75 protein_coding missense_variant MODERATE 240G>C Glu80Asp
M0163972 EIAGCJEB_00041 37046 3 Gut 0.75 protein_coding missense_variant MODERATE 236A>G Glu79Gly
M0163973 EIAGCJEB_00041 37051 3 Gut 0.75 protein_coding synonymous_variant LOW 231C>T Ala77Ala
M0163974 EIAGCJEB_00041 37087 3 Gut 0.75 protein_coding synonymous_variant LOW 195G>A Lys65Lys
M0163975 EIAGCJEB_00041 37108 3 Gut 0.75 protein_coding synonymous_variant LOW 174T>C Gly58Gly
M0163976 EIAGCJEB_00042 37372 3 Gut 0.75 protein_coding missense_variant MODERATE 1129T>C Ser377Pro
M0163977 EIAGCJEB_00045 39177 3 Gut 0.75 protein_coding synonymous_variant LOW 57T>C Gly19Gly
M0163978 EIAGCJEB_00046 39245 3 Gut 0.75 protein_coding splice_region_variant&stop_retained_variant LOW 279A>G Ter93Ter
M0163979 EIAGCJEB_00046 39260 3 Gut 0.75 protein_coding synonymous_variant LOW 264C>T Pro88Pro
M0163980 EIAGCJEB_00046 39263 3 Gut 0.75 protein_coding synonymous_variant LOW 261C>T Val87Val
M0163981 EIAGCJEB_00046 39266 3 Gut 0.75 protein_coding synonymous_variant LOW 258T>C Ser86Ser
M0163982 EIAGCJEB_00046 39278 3 Gut 0.75 protein_coding synonymous_variant LOW 246A>G Glu82Glu
M0163983 EIAGCJEB_00046 39290 3 Gut 0.75 protein_coding synonymous_variant LOW 234T>G Val78Val
M0163984 EIAGCJEB_00046 39293 3 Gut 0.75 protein_coding synonymous_variant LOW 231G>A Leu77Leu
M0163985 EIAGCJEB_00046 39317 3 Gut 0.75 protein_coding synonymous_variant LOW 207T>G Ala69Ala
M0163986 EIAGCJEB_00046 39324 3 Gut 0.75 protein_coding missense_variant MODERATE 200T>G Val67Gly
M0163987 EIAGCJEB_00039 39757 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -4473T>G None
M0163988 EIAGCJEB_00039 39762 3 Gut 0.75 protein_coding upstream_gene_variant MODIFIER -4478G>A None
M0163989 EIAGCJEB_00038 33861 3 Gut 0.75 protein_coding synonymous_variant LOW 819T>C Cys273Cys






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
EIAGCJEB_00002 QBA78937.1|GT2 98.4 1.93e-170 19 263 0.6516 0.7753
EIAGCJEB_00014 AHJ34515.1|GH31 100 0 1 690 1 1
EIAGCJEB_00033 AHJ34535.1|GH73 100 7.29e-241 1 336 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