Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3396
  Reference Plasmid   MGYG000299230__MGYG000299230_66
  Reference Plasmid Size   9897
  Reference Plasmid GC Content   0.41
  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
M0140116 NNBLFAGM_00005 4479 9 Oral 0.75 protein_coding synonymous_variant LOW 1176T>C Asn392Asn
M0140117 NNBLFAGM_00005 4560 3 Oral 0.25 protein_coding synonymous_variant LOW 1095T>C Ile365Ile
M0140118 NNBLFAGM_00005 4635 9 Oral 0.75 protein_coding synonymous_variant LOW 1020T>G Gly340Gly
M0140119 NNBLFAGM_00005 4991 5 Oral 0.42 protein_coding missense_variant MODERATE 664A>G Thr222Ala
M0140120 NNBLFAGM_00005 5019 7 Oral 0.58 protein_coding synonymous_variant LOW 636T>C Asn212Asn
M0140121 NNBLFAGM_00005 5208 4 Oral 0.33 protein_coding synonymous_variant LOW 447T>C Asn149Asn
M0140122 NNBLFAGM_00005 5226 7 Oral 0.58 protein_coding synonymous_variant LOW 429T>C Asn143Asn
M0140123 NNBLFAGM_00005 5496 8 Oral 0.67 protein_coding synonymous_variant LOW 159C>T Gly53Gly
M0140124 NNBLFAGM_00006 5695 9 Oral 0.75 protein_coding synonymous_variant LOW 2424A>T Ser808Ser
M0140125 NNBLFAGM_00006 6067 9 Oral 0.75 protein_coding synonymous_variant LOW 2052A>G Thr684Thr
M0140126 NNBLFAGM_00006 6187 6 Oral 0.50 protein_coding synonymous_variant LOW 1932A>G Leu644Leu
M0140127 NNBLFAGM_00006 6238 9 Oral 0.75 protein_coding synonymous_variant LOW 1881T>C Ala627Ala
M0140128 NNBLFAGM_00006 6250 3 Oral 0.25 protein_coding synonymous_variant LOW 1869C>T Ser623Ser
M0140129 NNBLFAGM_00006 6325 9 Oral 0.75 protein_coding synonymous_variant LOW 1794T>C Asn598Asn
M0140130 NNBLFAGM_00006 6358 9 Oral 0.75 protein_coding missense_variant MODERATE 1761T>A Asn587Lys
M0140131 NNBLFAGM_00006 6457 3 Oral 0.25 protein_coding synonymous_variant LOW 1662G>A Gln554Gln
M0140132 NNBLFAGM_00006 6525 9 Oral 0.75 protein_coding synonymous_variant LOW 1594T>C Leu532Leu
M0140133 NNBLFAGM_00006 6528 9 Oral 0.75 protein_coding missense_variant MODERATE 1591T>C Ser531Pro
M0140134 NNBLFAGM_00006 6705 9 Oral 0.75 protein_coding missense_variant MODERATE 1414A>T Met472Leu
M0140135 NNBLFAGM_00006 6769 3 Oral 0.25 protein_coding synonymous_variant LOW 1350A>G Thr450Thr
M0140136 NNBLFAGM_00006 6861 9 Oral 0.75 protein_coding missense_variant MODERATE 1258G>A Ala420Thr
M0140137 NNBLFAGM_00006 7041 9 Oral 0.75 protein_coding missense_variant MODERATE 1078T>C Tyr360His
M0140138 NNBLFAGM_00006 7072 5 Oral 0.42 protein_coding synonymous_variant LOW 1047T>C Asn349Asn
M0140139 NNBLFAGM_00006 7156 5 Oral 0.42 protein_coding synonymous_variant LOW 963A>G Leu321Leu
M0140140 NNBLFAGM_00006 7488 7 Oral 0.58 protein_coding synonymous_variant LOW 631T>C Leu211Leu
M0140141 NNBLFAGM_00006 7735 9 Oral 0.75 protein_coding synonymous_variant LOW 384C>T Asn128Asn
M0140142 NNBLFAGM_00006 7918 6 Oral 0.50 protein_coding synonymous_variant LOW 201T>C Val67Val
M0140143 NNBLFAGM_00006 8044 6 Oral 0.50 protein_coding synonymous_variant LOW 75A>G Gln25Gln
M0140144 NNBLFAGM_00006 8066 9 Oral 0.75 protein_coding missense_variant MODERATE 53T>G Val18Gly
M0140145 NNBLFAGM_00006 8070 4 Oral 0.33 protein_coding missense_variant MODERATE 49A>G Ile17Val
M0140146 NNBLFAGM_00007 8319 9 Oral 0.75 protein_coding synonymous_variant LOW 372A>G Lys124Lys
M0140147 NNBLFAGM_00007 8334 6 Oral 0.50 protein_coding synonymous_variant LOW 357A>T Leu119Leu
M0140148 NNBLFAGM_00007 8460 10 Oral 0.83 protein_coding missense_variant MODERATE 231T>A Asp77Glu
M0140149 NNBLFAGM_00007 8514 3 Oral 0.25 protein_coding synonymous_variant LOW 177C>A Leu59Leu
M0140150 NNBLFAGM_00008 8748 8 Oral 0.67 protein_coding missense_variant MODERATE 1010A>C Glu337Ala
M0140151 NNBLFAGM_00008 9341 4 Oral 0.33 protein_coding synonymous_variant LOW 417A>G Gln139Gln
M0140152 NNBLFAGM_00008 9581 3 Oral 0.25 protein_coding synonymous_variant LOW 177T>C Gly59Gly
M0140153 NNBLFAGM_00008 9629 3 Oral 0.25 protein_coding synonymous_variant LOW 129A>G Val43Val
M0140154 NNBLFAGM_00008 9635 4 Oral 0.33 protein_coding synonymous_variant LOW 123A>C Gly41Gly
M0140155 NNBLFAGM_00008 9680 3 Oral 0.25 protein_coding synonymous_variant LOW 78T>C Val26Val
M0140156 NNBLFAGM_00002 1294 8 Oral 0.67 protein_coding synonymous_variant LOW 525A>G Leu175Leu
M0140157 NNBLFAGM_00002 1342 3 Oral 0.25 protein_coding synonymous_variant LOW 477G>A Ser159Ser
M0140158 NNBLFAGM_00002 1495 5 Oral 0.42 protein_coding synonymous_variant LOW 324C>T Leu108Leu
M0140159 NNBLFAGM_00002 1501 4 Oral 0.33 protein_coding synonymous_variant LOW 318T>C Ser106Ser
M0140160 NNBLFAGM_00002 1513 3 Oral 0.25 protein_coding synonymous_variant LOW 306G>A Ala102Ala
M0140161 NNBLFAGM_00002 1723 3 Oral 0.25 protein_coding synonymous_variant LOW 96T>C Tyr32Tyr
M0140162 NNBLFAGM_00001 1861 6 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1228T>C None
M0140163 NNBLFAGM_00001 1881 8 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -1248G>A None
M0140164 NNBLFAGM_00003 2104 6 Oral 0.50 protein_coding missense_variant MODERATE 598G>C Glu200Gln
M0140165 NNBLFAGM_00003 2105 6 Oral 0.50 protein_coding synonymous_variant LOW 597A>G Gln199Gln
M0140166 NNBLFAGM_00003 2123 6 Oral 0.50 protein_coding synonymous_variant LOW 579A>G Ser193Ser
M0140167 NNBLFAGM_00003 2333 3 Oral 0.25 protein_coding synonymous_variant LOW 369A>G Gln123Gln
M0140168 NNBLFAGM_00003 2660 7 Oral 0.58 protein_coding synonymous_variant LOW 42A>G Leu14Leu
M0140169 NNBLFAGM_00001 2716 3 Oral 0.25 protein_coding upstream_gene_variant MODIFIER -2083A>T None
M0140170 NNBLFAGM_00004 2906 3 Oral 0.25 protein_coding synonymous_variant LOW 1548G>A Leu516Leu
M0140171 NNBLFAGM_00004 2961 6 Oral 0.50 protein_coding missense_variant MODERATE 1493C>A Ser498Tyr
M0140172 NNBLFAGM_00004 2962 6 Oral 0.50 protein_coding missense_variant MODERATE 1492T>G Ser498Ala
M0140173 NNBLFAGM_00004 2986 3 Oral 0.25 protein_coding synonymous_variant LOW 1468C>T Leu490Leu
M0140174 NNBLFAGM_00004 2990 3 Oral 0.25 protein_coding synonymous_variant LOW 1464T>A Val488Val
M0140175 NNBLFAGM_00004 2992 3 Oral 0.25 protein_coding missense_variant MODERATE 1462G>T Val488Phe
M0140176 NNBLFAGM_00004 3005 8 Oral 0.67 protein_coding synonymous_variant LOW 1449C>T Ala483Ala
M0140177 NNBLFAGM_00004 3127 6 Oral 0.50 protein_coding missense_variant MODERATE 1327G>A Gly443Ser
M0140178 NNBLFAGM_00004 3321 8 Oral 0.67 protein_coding missense_variant MODERATE 1133A>G Glu378Gly
M0140179 NNBLFAGM_00004 3385 9 Oral 0.75 protein_coding missense_variant MODERATE 1069T>C Cys357Arg
M0140180 NNBLFAGM_00004 3506 3 Oral 0.25 protein_coding synonymous_variant LOW 948A>T Leu316Leu
M0140181 NNBLFAGM_00004 3629 9 Oral 0.75 protein_coding synonymous_variant LOW 825C>A Ala275Ala
M0140182 NNBLFAGM_00004 3693 6 Oral 0.50 protein_coding missense_variant MODERATE 761T>C Val254Ala
M0140183 NNBLFAGM_00004 3755 7 Oral 0.58 protein_coding synonymous_variant LOW 699G>C Thr233Thr
M0140184 NNBLFAGM_00004 4051 9 Oral 0.75 protein_coding missense_variant MODERATE 403C>G Leu135Val
M0140185 NNBLFAGM_00004 4052 7 Oral 0.58 protein_coding synonymous_variant LOW 402C>T Tyr134Tyr
M0140186 NNBLFAGM_00004 4068 9 Oral 0.75 protein_coding missense_variant MODERATE 386A>C Asn129Thr
M0140187 NNBLFAGM_00004 4085 3 Oral 0.25 protein_coding synonymous_variant LOW 369C>T Ser123Ser
M0140188 NNBLFAGM_00004 4104 8 Oral 0.67 protein_coding missense_variant MODERATE 350T>A Ile117Lys
M0140189 NNBLFAGM_00004 4358 5 Oral 0.42 protein_coding synonymous_variant LOW 96G>A Leu32Leu
M0140190 NNBLFAGM_00004 4388 3 Oral 0.25 protein_coding synonymous_variant LOW 66A>C Thr22Thr
M0140191 NNBLFAGM_00005 5026 3 Oral 0.25 protein_coding missense_variant MODERATE 629T>A Phe210Tyr
M0140192 NNBLFAGM_00005 5101 3 Oral 0.25 protein_coding missense_variant MODERATE 554A>G Asp185Gly
M0140193 NNBLFAGM_00005 5477 7 Oral 0.58 protein_coding missense_variant MODERATE 178A>G Ile60Val
M0140194 NNBLFAGM_00005 5482 7 Oral 0.58 protein_coding missense_variant MODERATE 173G>C Arg58Thr
M0140195 NNBLFAGM_00002 5669 5 Oral 0.42 protein_coding upstream_gene_variant MODIFIER -3851C>T None
M0140196 NNBLFAGM_00006 5710 7 Oral 0.58 protein_coding synonymous_variant LOW 2409C>T Pro803Pro
M0140197 NNBLFAGM_00006 6193 3 Oral 0.25 protein_coding synonymous_variant LOW 1926C>T Ala642Ala
M0140198 NNBLFAGM_00006 6210 3 Oral 0.25 protein_coding synonymous_variant LOW 1909C>T Leu637Leu
M0140199 NNBLFAGM_00006 6700 4 Oral 0.33 protein_coding synonymous_variant LOW 1419T>C Gly473Gly
M0140200 NNBLFAGM_00006 6715 4 Oral 0.33 protein_coding missense_variant MODERATE 1404C>G Phe468Leu
M0140201 NNBLFAGM_00006 6754 3 Oral 0.25 protein_coding synonymous_variant LOW 1365G>C Gly455Gly
M0140202 NNBLFAGM_00006 7460 6 Oral 0.50 protein_coding missense_variant MODERATE 659C>A Ala220Glu
M0140203 NNBLFAGM_00006 7570 4 Oral 0.33 protein_coding synonymous_variant LOW 549G>T Ser183Ser
M0140204 NNBLFAGM_00006 7750 8 Oral 0.67 protein_coding synonymous_variant LOW 369G>A Ser123Ser
M0140205 NNBLFAGM_00001 1097 4 Oral 0.33 protein_coding upstream_gene_variant MODIFIER -464T>A None
M0140206 NNBLFAGM_00003 2249 7 Oral 0.58 protein_coding synonymous_variant LOW 453G>A Lys151Lys
M0140207 NNBLFAGM_00003 2252 7 Oral 0.58 protein_coding synonymous_variant LOW 450A>T Ile150Ile
M0140208 NNBLFAGM_00003 2399 6 Oral 0.50 protein_coding synonymous_variant LOW 303A>G Lys101Lys
M0140209 NNBLFAGM_00003 2552 4 Oral 0.33 protein_coding synonymous_variant LOW 150T>C Ala50Ala
M0140210 NNBLFAGM_00004 3193 7 Oral 0.58 protein_coding missense_variant MODERATE 1261T>G Ser421Ala
M0140211 NNBLFAGM_00004 3713 3 Oral 0.25 protein_coding synonymous_variant LOW 741G>A Ala247Ala
M0140212 NNBLFAGM_00004 3763 8 Oral 0.67 protein_coding missense_variant MODERATE 691T>C Ser231Pro
M0140213 NNBLFAGM_00005 4818 4 Oral 0.33 protein_coding synonymous_variant LOW 837A>G Thr279Thr
M0140214 NNBLFAGM_00005 4819 4 Oral 0.33 protein_coding missense_variant MODERATE 836C>A Thr279Lys
M0140215 NNBLFAGM_00005 4821 4 Oral 0.33 protein_coding missense_variant MODERATE 834C>A His278Gln
M0140216 NNBLFAGM_00005 4937 3 Oral 0.25 protein_coding missense_variant MODERATE 718C>T His240Tyr
M0140217 NNBLFAGM_00005 5580 5 Oral 0.42 protein_coding synonymous_variant LOW 75T>A Ile25Ile
M0140218 NNBLFAGM_00006 7117 5 Oral 0.42 protein_coding synonymous_variant LOW 1002C>T Ala334Ala
M0140219 NNBLFAGM_00006 7378 3 Oral 0.25 protein_coding synonymous_variant LOW 741G>A Thr247Thr
M0140220 NNBLFAGM_00006 7762 3 Oral 0.25 protein_coding synonymous_variant LOW 357C>A Ile119Ile
M0140221 NNBLFAGM_00006 8008 3 Oral 0.25 protein_coding synonymous_variant LOW 111A>T Ile37Ile
M0140222 NNBLFAGM_00007 8196 3 Oral 0.25 protein_coding synonymous_variant LOW 495T>C Asn165Asn
M0140223 NNBLFAGM_00003 2213 4 Oral 0.33 protein_coding synonymous_variant LOW 489G>A Gly163Gly
M0140224 NNBLFAGM_00003 2330 3 Oral 0.25 protein_coding synonymous_variant LOW 372T>G Thr124Thr
M0140225 NNBLFAGM_00004 3027 3 Oral 0.25 protein_coding missense_variant MODERATE 1427A>G Lys476Arg
M0140226 NNBLFAGM_00004 3141 4 Oral 0.33 protein_coding missense_variant MODERATE 1313A>C Glu438Ala
M0140227 NNBLFAGM_00004 3146 3 Oral 0.25 protein_coding synonymous_variant LOW 1308A>G Leu436Leu
M0140228 NNBLFAGM_00004 3158 4 Oral 0.33 protein_coding synonymous_variant LOW 1296A>G Val432Val
M0140229 NNBLFAGM_00004 3161 3 Oral 0.25 protein_coding synonymous_variant LOW 1293G>A Gln431Gln
M0140230 NNBLFAGM_00004 3374 3 Oral 0.25 protein_coding synonymous_variant LOW 1080T>C Tyr360Tyr
M0140231 NNBLFAGM_00006 6418 3 Oral 0.25 protein_coding synonymous_variant LOW 1701C>T Asn567Asn
M0140232 NNBLFAGM_00006 7756 4 Oral 0.33 protein_coding synonymous_variant LOW 363C>T Phe121Phe
M0140233 NNBLFAGM_00008 9338 3 Oral 0.25 protein_coding synonymous_variant LOW 420A>G Glu140Glu
M0140234 NNBLFAGM_00002 1398 3 Oral 0.25 protein_coding synonymous_variant LOW 421T>C Leu141Leu
M0140235 NNBLFAGM_00004 4228 4 Oral 0.33 protein_coding missense_variant MODERATE 226A>G Thr76Ala
M0140236 NNBLFAGM_00008 9478 4 Oral 0.33 protein_coding missense_variant MODERATE 280G>A Asp94Asn
M0140237 NNBLFAGM_00004 3464 3 Oral 0.25 protein_coding synonymous_variant LOW 990T>C Ile330Ile
M0140238 NNBLFAGM_00004 4400 4 Oral 0.33 protein_coding synonymous_variant LOW 54G>A Leu18Leu
M0140239 NNBLFAGM_00002 1311 3 Oral 0.25 protein_coding missense_variant MODERATE 508A>G Thr170Ala






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