Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2464
  Reference Plasmid   1111525849768046_bin.37__k141_68960
  Reference Plasmid Size   3279
  Reference Plasmid GC Content   0.35
  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
M0128096 JJKEFLFF_00001 1146 5 Oral 0.56 protein_coding synonymous_variant LOW 252G>A Lys84Lys
M0128097 JJKEFLFF_00001 1260 3 Oral 0.33 protein_coding synonymous_variant LOW 138A>T Arg46Arg
M0128098 JJKEFLFF_00001 1344 8 Oral 0.89 protein_coding synonymous_variant LOW 54A>G Lys18Lys
M0128099 JJKEFLFF_00001 1571 9 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -174T>G None
M0128100 JJKEFLFF_00001 1584 8 Oral 0.89 protein_coding upstream_gene_variant MODIFIER -187C>T None
M0128101 JJKEFLFF_00001 1614 8 Oral 0.89 protein_coding upstream_gene_variant MODIFIER -217T>C None
M0128102 JJKEFLFF_00001 1624 8 Oral 0.89 protein_coding upstream_gene_variant MODIFIER -227G>T None
M0128103 JJKEFLFF_00001 1632 8 Oral 0.89 protein_coding upstream_gene_variant MODIFIER -235G>A None
M0128104 JJKEFLFF_00002 1668 9 Oral 1.00 protein_coding missense_variant MODERATE 1322G>A Arg441Lys
M0128105 JJKEFLFF_00002 1670 8 Oral 0.89 protein_coding synonymous_variant LOW 1320T>C Asn440Asn
M0128106 JJKEFLFF_00002 1760 5 Oral 0.56 protein_coding synonymous_variant LOW 1230A>T Pro410Pro
M0128107 JJKEFLFF_00002 1775 8 Oral 0.89 protein_coding synonymous_variant LOW 1215A>G Thr405Thr
M0128108 JJKEFLFF_00002 1799 7 Oral 0.78 protein_coding synonymous_variant LOW 1191T>C Thr397Thr
M0128109 JJKEFLFF_00002 1817 6 Oral 0.67 protein_coding synonymous_variant LOW 1173A>G Ser391Ser
M0128110 JJKEFLFF_00002 1828 8 Oral 0.89 protein_coding missense_variant MODERATE 1162A>G Ile388Val
M0128111 JJKEFLFF_00002 1853 6 Oral 0.67 protein_coding synonymous_variant LOW 1137G>A Leu379Leu
M0128112 JJKEFLFF_00002 1869 6 Oral 0.67 protein_coding missense_variant MODERATE 1121C>T Ala374Val
M0128113 JJKEFLFF_00002 1934 8 Oral 0.89 protein_coding synonymous_variant LOW 1056T>A Thr352Thr
M0128114 JJKEFLFF_00002 1979 5 Oral 0.56 protein_coding synonymous_variant LOW 1011G>A Glu337Glu
M0128115 JJKEFLFF_00002 1983 8 Oral 0.89 protein_coding missense_variant MODERATE 1007C>A Ala336Glu
M0128116 JJKEFLFF_00002 2009 8 Oral 0.89 protein_coding synonymous_variant LOW 981G>A Gly327Gly
M0128117 JJKEFLFF_00002 2158 8 Oral 0.89 protein_coding missense_variant MODERATE 832A>G Ile278Val
M0128118 JJKEFLFF_00002 2172 5 Oral 0.56 protein_coding missense_variant MODERATE 818C>T Thr273Ile
M0128119 JJKEFLFF_00002 2180 7 Oral 0.78 protein_coding synonymous_variant LOW 810C>T Pro270Pro
M0128120 JJKEFLFF_00002 2278 8 Oral 0.89 protein_coding missense_variant MODERATE 712A>G Ser238Gly
M0128121 JJKEFLFF_00002 2315 6 Oral 0.67 protein_coding synonymous_variant LOW 675T>A Ile225Ile
M0128122 JJKEFLFF_00002 2336 5 Oral 0.56 protein_coding synonymous_variant LOW 654G>A Lys218Lys
M0128123 JJKEFLFF_00002 2417 5 Oral 0.56 protein_coding synonymous_variant LOW 573T>C Phe191Phe
M0128124 JJKEFLFF_00002 2483 7 Oral 0.78 protein_coding synonymous_variant LOW 507G>A Leu169Leu
M0128125 JJKEFLFF_00002 2490 7 Oral 0.78 protein_coding missense_variant MODERATE 500C>T Ser167Leu
M0128126 JJKEFLFF_00002 2626 8 Oral 0.89 protein_coding missense_variant MODERATE 364A>G Thr122Ala
M0128127 JJKEFLFF_00002 2758 5 Oral 0.56 protein_coding missense_variant MODERATE 232G>A Asp78Asn
M0128128 JJKEFLFF_00002 2762 8 Oral 0.89 protein_coding synonymous_variant LOW 228C>T Leu76Leu
M0128129 JJKEFLFF_00002 2780 7 Oral 0.78 protein_coding synonymous_variant LOW 210T>C Pro70Pro
M0128130 JJKEFLFF_00002 2786 7 Oral 0.78 protein_coding synonymous_variant LOW 204G>A Glu68Glu
M0128131 JJKEFLFF_00002 2850 8 Oral 0.89 protein_coding missense_variant MODERATE 140G>A Ser47Asn
M0128132 JJKEFLFF_00002 2864 5 Oral 0.56 protein_coding missense_variant MODERATE 126A>T Gln42His
M0128133 JJKEFLFF_00002 2869 5 Oral 0.56 protein_coding missense_variant MODERATE 121A>G Asn41Asp
M0128134 JJKEFLFF_00002 2888 8 Oral 0.89 protein_coding synonymous_variant LOW 102T>C Thr34Thr
M0128135 JJKEFLFF_00002 2906 7 Oral 0.78 protein_coding synonymous_variant LOW 84C>T Ile28Ile
M0128136 JJKEFLFF_00002 2915 8 Oral 0.89 protein_coding synonymous_variant LOW 75C>T Gly25Gly
M0128137 JJKEFLFF_00002 2954 7 Oral 0.78 protein_coding synonymous_variant LOW 36C>T Asp12Asp
M0128138 JJKEFLFF_00002 2979 8 Oral 0.89 protein_coding missense_variant MODERATE 11C>T Ala4Val
M0128139 JJKEFLFF_00001 2996 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1599C>T None
M0128140 JJKEFLFF_00001 3014 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1617G>A None
M0128141 JJKEFLFF_00001 3020 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1623C>T None
M0128142 JJKEFLFF_00001 3032 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1635A>T None
M0128143 JJKEFLFF_00001 3068 4 Oral 0.44 protein_coding upstream_gene_variant MODIFIER -1671C>T None
M0128144 JJKEFLFF_00001 3071 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1674G>A None
M0128145 JJKEFLFF_00001 3130 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -1733G>A None
M0128146 JJKEFLFF_00001 3131 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -1734T>A None
M0128147 JJKEFLFF_00001 3134 4 Oral 0.44 protein_coding upstream_gene_variant MODIFIER -1737T>C None
M0128148 JJKEFLFF_00001 3167 5 Oral 0.56 protein_coding upstream_gene_variant MODIFIER -1770T>C None
M0128149 JJKEFLFF_00001 3194 5 Oral 0.56 protein_coding upstream_gene_variant MODIFIER -1797T>C None
M0128150 JJKEFLFF_00001 3215 6 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1818C>T None
M0128151 JJKEFLFF_00001 214 4 Oral 0.44 protein_coding downstream_gene_variant MODIFIER *902G>T None
M0128152 JJKEFLFF_00001 233 3 Oral 0.33 protein_coding downstream_gene_variant MODIFIER *883C>T None
M0128153 JJKEFLFF_00001 266 4 Oral 0.44 protein_coding downstream_gene_variant MODIFIER *850G>A None
M0128154 JJKEFLFF_00001 335 8 Oral 0.89 protein_coding downstream_gene_variant MODIFIER *781G>A None
M0128155 JJKEFLFF_00001 374 8 Oral 0.89 protein_coding downstream_gene_variant MODIFIER *742A>T None
M0128156 JJKEFLFF_00001 508 8 Oral 0.89 protein_coding downstream_gene_variant MODIFIER *608T>C None
M0128157 JJKEFLFF_00001 510 4 Oral 0.44 protein_coding downstream_gene_variant MODIFIER *606C>T None
M0128158 JJKEFLFF_00001 875 8 Oral 0.89 protein_coding downstream_gene_variant MODIFIER *241C>T None
M0128159 JJKEFLFF_00001 1094 6 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *22C>G None
M0128160 JJKEFLFF_00001 1548 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -151T>A None
M0128161 JJKEFLFF_00001 1585 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -188G>A None
M0128162 JJKEFLFF_00001 1604 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -207A>C None
M0128163 JJKEFLFF_00001 1615 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -218G>A None
M0128164 JJKEFLFF_00002 1724 4 Oral 0.44 protein_coding synonymous_variant LOW 1266C>T Asn422Asn
M0128165 JJKEFLFF_00002 2081 3 Oral 0.33 protein_coding synonymous_variant LOW 909C>T Asn303Asn
M0128166 JJKEFLFF_00002 2135 3 Oral 0.33 protein_coding synonymous_variant LOW 855T>C Thr285Thr
M0128167 JJKEFLFF_00002 2420 4 Oral 0.44 protein_coding synonymous_variant LOW 570C>A Pro190Pro
M0128168 JJKEFLFF_00002 2588 3 Oral 0.33 protein_coding synonymous_variant LOW 402A>T Val134Val
M0128169 JJKEFLFF_00002 2636 4 Oral 0.44 protein_coding synonymous_variant LOW 354T>C Asn118Asn
M0128170 JJKEFLFF_00001 3076 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -1679T>G None
M0128171 JJKEFLFF_00001 3120 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -1723C>G None
M0128172 JJKEFLFF_00001 122 3 Oral 0.33 protein_coding downstream_gene_variant MODIFIER *994T>C None
M0128173 JJKEFLFF_00001 611 4 Oral 0.44 protein_coding downstream_gene_variant MODIFIER *505T>C None
M0128174 JJKEFLFF_00001 791 3 Oral 0.33 protein_coding downstream_gene_variant MODIFIER *325C>T None
M0128175 JJKEFLFF_00001 1086 5 Oral 0.56 protein_coding downstream_gene_variant MODIFIER *30A>T None
M0128176 JJKEFLFF_00001 1096 5 Oral 0.56 protein_coding downstream_gene_variant MODIFIER *20A>G None
M0128177 JJKEFLFF_00001 1097 7 Oral 0.78 protein_coding downstream_gene_variant MODIFIER *19T>G None
M0128178 JJKEFLFF_00001 1101 7 Oral 0.78 protein_coding downstream_gene_variant MODIFIER *15A>C None
M0128179 JJKEFLFF_00001 1110 5 Oral 0.56 protein_coding downstream_gene_variant MODIFIER *6C>A None
M0128180 JJKEFLFF_00001 1112 6 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *4T>C None
M0128181 JJKEFLFF_00001 1113 7 Oral 0.78 protein_coding downstream_gene_variant MODIFIER *3A>C None
M0128182 JJKEFLFF_00001 1134 4 Oral 0.44 protein_coding synonymous_variant LOW 264A>G Glu88Glu
M0128183 JJKEFLFF_00001 1521 3 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -124G>A None
M0128184 JJKEFLFF_00002 2429 3 Oral 0.33 protein_coding synonymous_variant LOW 561A>G Gln187Gln






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