Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2713
  Reference Plasmid   1111525849861727_bin.16__k141_101569
  Reference Plasmid Size   3776
  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
M0131177 AHDLBHAJ_00001 36 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -85C>T None
M0131178 AHDLBHAJ_00001 60 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -61C>T None
M0131179 AHDLBHAJ_00001 64 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -57G>T None
M0131180 AHDLBHAJ_00001 86 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -35T>C None
M0131181 AHDLBHAJ_00001 105 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -16G>T None
M0131182 AHDLBHAJ_00001 106 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -15T>A None
M0131183 AHDLBHAJ_00001 138 4 Oral 0.67 protein_coding synonymous_variant LOW 18T>A Thr6Thr
M0131184 AHDLBHAJ_00001 219 4 Oral 0.67 protein_coding synonymous_variant LOW 99T>G Ala33Ala
M0131185 AHDLBHAJ_00001 387 3 Oral 0.50 protein_coding synonymous_variant LOW 267T>C Asp89Asp
M0131186 AHDLBHAJ_00001 420 3 Oral 0.50 protein_coding synonymous_variant LOW 300G>T Ser100Ser
M0131187 AHDLBHAJ_00001 429 3 Oral 0.50 protein_coding synonymous_variant LOW 309C>T Asp103Asp
M0131188 AHDLBHAJ_00001 549 3 Oral 0.50 protein_coding synonymous_variant LOW 429G>A Val143Val
M0131189 AHDLBHAJ_00001 690 3 Oral 0.50 protein_coding synonymous_variant LOW 570C>T Gly190Gly
M0131190 AHDLBHAJ_00001 879 4 Oral 0.67 protein_coding synonymous_variant LOW 759C>T Gly253Gly
M0131191 AHDLBHAJ_00001 885 4 Oral 0.67 protein_coding synonymous_variant LOW 765A>G Val255Val
M0131192 AHDLBHAJ_00001 924 3 Oral 0.50 protein_coding synonymous_variant LOW 804A>G Val268Val
M0131193 AHDLBHAJ_00001 1081 4 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *13G>A None
M0131194 AHDLBHAJ_00001 1104 4 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *36A>G None
M0131195 AHDLBHAJ_00001 1121 4 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *53T>G None
M0131196 AHDLBHAJ_00001 1130 4 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *62A>G None
M0131197 AHDLBHAJ_00001 1143 4 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *75G>T None
M0131198 AHDLBHAJ_00001 1176 4 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *108T>C None
M0131199 AHDLBHAJ_00001 1184 4 Oral 0.67 protein_coding downstream_gene_variant MODIFIER *116C>T None
M0131200 AHDLBHAJ_00002 1350 4 Oral 0.67 protein_coding synonymous_variant LOW 486A>T Thr162Thr
M0131201 AHDLBHAJ_00002 1352 4 Oral 0.67 protein_coding missense_variant MODERATE 484A>G Thr162Ala
M0131202 AHDLBHAJ_00002 1375 4 Oral 0.67 protein_coding missense_variant MODERATE 461T>C Val154Ala
M0131203 AHDLBHAJ_00002 1380 4 Oral 0.67 protein_coding missense_variant MODERATE 456A>C Glu152Asp
M0131204 AHDLBHAJ_00002 1400 4 Oral 0.67 protein_coding missense_variant MODERATE 436G>A Asp146Asn
M0131205 AHDLBHAJ_00002 1608 3 Oral 0.50 protein_coding synonymous_variant LOW 228C>T Asp76Asp
M0131206 AHDLBHAJ_00002 1966 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -131C>A None
M0131207 AHDLBHAJ_00002 1967 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -132A>C None
M0131208 AHDLBHAJ_00002 1970 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -135G>A None
M0131209 AHDLBHAJ_00002 2193 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -358A>T None
M0131210 AHDLBHAJ_00002 2212 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -377A>T None
M0131211 AHDLBHAJ_00002 2225 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -390A>G None
M0131212 AHDLBHAJ_00002 2252 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -417T>C None
M0131213 AHDLBHAJ_00002 2269 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -434T>C None
M0131214 AHDLBHAJ_00003 2395 4 Oral 0.67 protein_coding synonymous_variant LOW 1248A>C Gly416Gly
M0131215 AHDLBHAJ_00003 2398 4 Oral 0.67 protein_coding synonymous_variant LOW 1245A>T Thr415Thr
M0131216 AHDLBHAJ_00003 2959 4 Oral 0.67 protein_coding synonymous_variant LOW 684T>C Gly228Gly
M0131217 AHDLBHAJ_00003 3058 4 Oral 0.67 protein_coding synonymous_variant LOW 585A>C Ile195Ile
M0131218 AHDLBHAJ_00003 3169 3 Oral 0.50 protein_coding synonymous_variant LOW 474T>C Asp158Asp
M0131219 AHDLBHAJ_00003 3226 4 Oral 0.67 protein_coding synonymous_variant LOW 417A>G Ala139Ala
M0131220 AHDLBHAJ_00003 3316 4 Oral 0.67 protein_coding synonymous_variant LOW 327A>T Thr109Thr
M0131221 AHDLBHAJ_00002 3676 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1841C>T None
M0131222 AHDLBHAJ_00002 3735 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1900C>T None
M0131223 AHDLBHAJ_00001 795 3 Oral 0.50 protein_coding synonymous_variant LOW 675G>A Lys225Lys
M0131224 AHDLBHAJ_00001 798 3 Oral 0.50 protein_coding synonymous_variant LOW 678C>T Gly226Gly
M0131225 AHDLBHAJ_00002 1440 3 Oral 0.50 protein_coding synonymous_variant LOW 396A>T Thr132Thr
M0131226 AHDLBHAJ_00003 2569 3 Oral 0.50 protein_coding synonymous_variant LOW 1074C>T Tyr358Tyr
M0131227 AHDLBHAJ_00003 2734 3 Oral 0.50 protein_coding synonymous_variant LOW 909G>A Glu303Glu
M0131228 AHDLBHAJ_00003 2800 3 Oral 0.50 protein_coding synonymous_variant LOW 843A>T Val281Val
M0131229 AHDLBHAJ_00003 2962 3 Oral 0.50 protein_coding synonymous_variant LOW 681T>A Ala227Ala
M0131230 AHDLBHAJ_00003 3091 3 Oral 0.50 protein_coding synonymous_variant LOW 552A>C Thr184Thr
M0131231 AHDLBHAJ_00003 3190 3 Oral 0.50 protein_coding synonymous_variant LOW 453C>T Ile151Ile
M0131232 AHDLBHAJ_00003 3193 3 Oral 0.50 protein_coding synonymous_variant LOW 450A>G Ala150Ala
M0131233 AHDLBHAJ_00003 3229 3 Oral 0.50 protein_coding synonymous_variant LOW 414T>A Ala138Ala






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