Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2393
  Reference Plasmid   1111525849768046_bin.37__k141_165308
  Reference Plasmid Size   10719
  Reference Plasmid GC Content   0.40
  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
M0121465 PGLKKAKK_00001 1915 5 Oral 0.83 protein_coding synonymous_variant LOW 1038G>A Gln346Gln
M0121466 PGLKKAKK_00001 1996 4 Oral 0.67 protein_coding synonymous_variant LOW 957C>T Arg319Arg
M0121467 PGLKKAKK_00001 2023 3 Oral 0.50 protein_coding synonymous_variant LOW 930A>G Val310Val
M0121468 PGLKKAKK_00001 2146 4 Oral 0.67 protein_coding synonymous_variant LOW 807C>G Thr269Thr
M0121469 PGLKKAKK_00001 2296 4 Oral 0.67 protein_coding synonymous_variant LOW 657A>T Ala219Ala
M0121470 PGLKKAKK_00001 2300 3 Oral 0.50 protein_coding missense_variant MODERATE 653C>T Ala218Val
M0121471 PGLKKAKK_00001 2314 3 Oral 0.50 protein_coding missense_variant MODERATE 639T>G Ile213Met
M0121472 PGLKKAKK_00001 2316 4 Oral 0.67 protein_coding missense_variant MODERATE 637A>G Ile213Val
M0121473 PGLKKAKK_00001 2386 3 Oral 0.50 protein_coding synonymous_variant LOW 567C>T Cys189Cys
M0121474 PGLKKAKK_00001 2445 4 Oral 0.67 protein_coding missense_variant MODERATE 508A>G Thr170Ala
M0121475 PGLKKAKK_00001 2449 4 Oral 0.67 protein_coding synonymous_variant LOW 504A>C Gly168Gly
M0121476 PGLKKAKK_00001 2524 3 Oral 0.50 protein_coding synonymous_variant LOW 429T>C Ala143Ala
M0121477 PGLKKAKK_00001 2527 4 Oral 0.67 protein_coding synonymous_variant LOW 426T>C Thr142Thr
M0121478 PGLKKAKK_00001 2539 4 Oral 0.67 protein_coding synonymous_variant LOW 414T>C Phe138Phe
M0121479 PGLKKAKK_00001 2557 4 Oral 0.67 protein_coding synonymous_variant LOW 396T>C Gly132Gly
M0121480 PGLKKAKK_00001 2560 4 Oral 0.67 protein_coding synonymous_variant LOW 393T>A Thr131Thr
M0121481 PGLKKAKK_00001 2652 4 Oral 0.67 protein_coding synonymous_variant LOW 301T>C Leu101Leu
M0121482 PGLKKAKK_00001 2668 3 Oral 0.50 protein_coding synonymous_variant LOW 285G>A Thr95Thr
M0121483 PGLKKAKK_00001 2685 3 Oral 0.50 protein_coding synonymous_variant LOW 268C>T Leu90Leu
M0121484 PGLKKAKK_00001 2716 3 Oral 0.50 protein_coding synonymous_variant LOW 237T>A Thr79Thr
M0121485 PGLKKAKK_00001 2722 3 Oral 0.50 protein_coding synonymous_variant LOW 231C>T Val77Val
M0121486 PGLKKAKK_00001 2734 3 Oral 0.50 protein_coding synonymous_variant LOW 219A>C Ser73Ser
M0121487 PGLKKAKK_00001 2986 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -34C>T None
M0121488 PGLKKAKK_00001 3014 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -62T>C None
M0121489 PGLKKAKK_00001 3018 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -66C>T None
M0121490 PGLKKAKK_00001 3019 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -67C>T None
M0121491 PGLKKAKK_00001 3025 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -73C>T None
M0121492 PGLKKAKK_00001 3030 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -78T>C None
M0121493 PGLKKAKK_00001 3096 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -144T>C None
M0121494 PGLKKAKK_00001 3130 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -178A>G None
M0121495 PGLKKAKK_00001 3145 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -193A>G None
M0121496 PGLKKAKK_00001 3154 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -202T>C None
M0121497 PGLKKAKK_00002 3350 4 Oral 0.67 protein_coding synonymous_variant LOW 354G>A Leu118Leu
M0121498 PGLKKAKK_00002 3359 4 Oral 0.67 protein_coding synonymous_variant LOW 345T>C Asp115Asp
M0121499 PGLKKAKK_00002 3407 4 Oral 0.67 protein_coding synonymous_variant LOW 297C>T Tyr99Tyr
M0121500 PGLKKAKK_00002 3446 3 Oral 0.50 protein_coding synonymous_variant LOW 258G>A Leu86Leu
M0121501 PGLKKAKK_00002 3503 4 Oral 0.67 protein_coding synonymous_variant LOW 201G>T Ser67Ser
M0121502 PGLKKAKK_00002 3533 5 Oral 0.83 protein_coding synonymous_variant LOW 171T>C Gly57Gly
M0121503 PGLKKAKK_00002 3536 5 Oral 0.83 protein_coding synonymous_variant LOW 168A>T Val56Val
M0121504 PGLKKAKK_00002 3554 3 Oral 0.50 protein_coding synonymous_variant LOW 150A>G Lys50Lys
M0121505 PGLKKAKK_00002 3563 5 Oral 0.83 protein_coding synonymous_variant LOW 141T>C Tyr47Tyr
M0121506 PGLKKAKK_00002 3635 4 Oral 0.67 protein_coding synonymous_variant LOW 69T>C Phe23Phe
M0121507 PGLKKAKK_00002 3641 4 Oral 0.67 protein_coding synonymous_variant LOW 63G>C Val21Val
M0121508 PGLKKAKK_00002 3647 4 Oral 0.67 protein_coding synonymous_variant LOW 57A>G Lys19Lys
M0121509 PGLKKAKK_00003 3992 3 Oral 0.50 protein_coding synonymous_variant LOW 1830C>T Asn610Asn
M0121510 PGLKKAKK_00003 4004 3 Oral 0.50 protein_coding synonymous_variant LOW 1818A>G Lys606Lys
M0121511 PGLKKAKK_00003 4011 3 Oral 0.50 protein_coding missense_variant MODERATE 1811G>A Arg604Lys
M0121512 PGLKKAKK_00003 4073 3 Oral 0.50 protein_coding synonymous_variant LOW 1749T>C Tyr583Tyr
M0121513 PGLKKAKK_00003 4103 6 Oral 1.00 protein_coding synonymous_variant LOW 1719T>C Ile573Ile
M0121514 PGLKKAKK_00003 4114 6 Oral 1.00 protein_coding missense_variant MODERATE 1708A>G Lys570Glu
M0121515 PGLKKAKK_00003 4178 4 Oral 0.67 protein_coding synonymous_variant LOW 1644C>A Thr548Thr
M0121516 PGLKKAKK_00003 4181 4 Oral 0.67 protein_coding synonymous_variant LOW 1641C>T Leu547Leu
M0121517 PGLKKAKK_00003 4214 4 Oral 0.67 protein_coding synonymous_variant LOW 1608T>C Ile536Ile
M0121518 PGLKKAKK_00003 4220 4 Oral 0.67 protein_coding synonymous_variant LOW 1602T>A Ser534Ser
M0121519 PGLKKAKK_00003 4252 5 Oral 0.83 protein_coding synonymous_variant LOW 1570C>T Leu524Leu
M0121520 PGLKKAKK_00003 4415 5 Oral 0.83 protein_coding synonymous_variant LOW 1407A>G Leu469Leu
M0121521 PGLKKAKK_00003 4420 4 Oral 0.67 protein_coding synonymous_variant LOW 1402T>C Leu468Leu
M0121522 PGLKKAKK_00003 4421 4 Oral 0.67 protein_coding synonymous_variant LOW 1401C>T Ile467Ile
M0121523 PGLKKAKK_00003 4451 5 Oral 0.83 protein_coding synonymous_variant LOW 1371T>A Arg457Arg
M0121524 PGLKKAKK_00003 4487 6 Oral 1.00 protein_coding synonymous_variant LOW 1335T>C Asp445Asp
M0121525 PGLKKAKK_00003 4511 5 Oral 0.83 protein_coding synonymous_variant LOW 1311A>G Glu437Glu
M0121526 PGLKKAKK_00003 4543 4 Oral 0.67 protein_coding missense_variant MODERATE 1279G>A Asp427Asn
M0121527 PGLKKAKK_00003 4652 5 Oral 0.83 protein_coding synonymous_variant LOW 1170A>G Val390Val
M0121528 PGLKKAKK_00003 4676 6 Oral 1.00 protein_coding synonymous_variant LOW 1146T>A Leu382Leu
M0121529 PGLKKAKK_00003 4771 6 Oral 1.00 protein_coding synonymous_variant LOW 1051C>T Leu351Leu
M0121530 PGLKKAKK_00003 4970 3 Oral 0.50 protein_coding synonymous_variant LOW 852T>C Leu284Leu
M0121531 PGLKKAKK_00003 4997 5 Oral 0.83 protein_coding synonymous_variant LOW 825T>C Tyr275Tyr
M0121532 PGLKKAKK_00003 5102 5 Oral 0.83 protein_coding synonymous_variant LOW 720A>G Val240Val
M0121533 PGLKKAKK_00003 5126 3 Oral 0.50 protein_coding synonymous_variant LOW 696T>C Pro232Pro
M0121534 PGLKKAKK_00003 5195 6 Oral 1.00 protein_coding synonymous_variant LOW 627T>C Ala209Ala
M0121535 PGLKKAKK_00003 5387 5 Oral 0.83 protein_coding synonymous_variant LOW 435A>G Thr145Thr
M0121536 PGLKKAKK_00003 5402 3 Oral 0.50 protein_coding synonymous_variant LOW 420G>A Glu140Glu
M0121537 PGLKKAKK_00001 5869 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -2917T>C None
M0121538 PGLKKAKK_00001 5872 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -2920C>T None
M0121539 PGLKKAKK_00001 1270 3 Oral 0.50 protein_coding synonymous_variant LOW 1683C>T Asn561Asn
M0121540 PGLKKAKK_00001 1279 3 Oral 0.50 protein_coding synonymous_variant LOW 1674A>G Glu558Glu
M0121541 PGLKKAKK_00001 1294 3 Oral 0.50 protein_coding synonymous_variant LOW 1659C>T Thr553Thr
M0121542 PGLKKAKK_00001 1471 3 Oral 0.50 protein_coding synonymous_variant LOW 1482A>T Ile494Ile
M0121543 PGLKKAKK_00001 1528 3 Oral 0.50 protein_coding synonymous_variant LOW 1425A>T Gly475Gly
M0121544 PGLKKAKK_00001 1558 3 Oral 0.50 protein_coding synonymous_variant LOW 1395T>G Pro465Pro
M0121545 PGLKKAKK_00001 1762 3 Oral 0.50 protein_coding synonymous_variant LOW 1191G>C Leu397Leu
M0121546 PGLKKAKK_00001 2500 3 Oral 0.50 protein_coding synonymous_variant LOW 453C>T Ile151Ile
M0121547 PGLKKAKK_00003 4427 3 Oral 0.50 protein_coding synonymous_variant LOW 1395T>C Tyr465Tyr
M0121548 PGLKKAKK_00003 4454 3 Oral 0.50 protein_coding synonymous_variant LOW 1368T>C Tyr456Tyr
M0121549 PGLKKAKK_00003 4460 3 Oral 0.50 protein_coding synonymous_variant LOW 1362A>G Glu454Glu
M0121550 PGLKKAKK_00003 4574 3 Oral 0.50 protein_coding synonymous_variant LOW 1248A>T Ala416Ala
M0121551 PGLKKAKK_00003 4580 3 Oral 0.50 protein_coding synonymous_variant LOW 1242A>G Leu414Leu
M0121552 PGLKKAKK_00003 4595 3 Oral 0.50 protein_coding synonymous_variant LOW 1227A>T Ala409Ala
M0121553 PGLKKAKK_00003 4604 3 Oral 0.50 protein_coding synonymous_variant LOW 1218T>C Tyr406Tyr
M0121554 PGLKKAKK_00003 4784 4 Oral 0.67 protein_coding synonymous_variant LOW 1038C>T Pro346Pro
M0121555 PGLKKAKK_00003 4841 5 Oral 0.83 protein_coding synonymous_variant LOW 981A>G Glu327Glu
M0121556 PGLKKAKK_00003 5027 3 Oral 0.50 protein_coding synonymous_variant LOW 795A>T Pro265Pro
M0121557 PGLKKAKK_00003 5267 4 Oral 0.67 protein_coding synonymous_variant LOW 555A>G Ala185Ala
M0121558 PGLKKAKK_00003 5291 3 Oral 0.50 protein_coding synonymous_variant LOW 531C>T Thr177Thr
M0121559 PGLKKAKK_00001 6042 4 Oral 0.67 protein_coding upstream_gene_variant MODIFIER -3090C>T None
M0121560 PGLKKAKK_00004 6704 3 Oral 0.50 protein_coding missense_variant MODERATE 586A>G Thr196Ala
M0121561 PGLKKAKK_00005 7409 3 Oral 0.50 protein_coding synonymous_variant LOW 561T>C Leu187Leu
M0121562 PGLKKAKK_00005 7499 3 Oral 0.50 protein_coding synonymous_variant LOW 651A>G Glu217Glu
M0121563 PGLKKAKK_00005 7826 3 Oral 0.50 protein_coding synonymous_variant LOW 978A>T Leu326Leu
M0121564 PGLKKAKK_00005 8249 3 Oral 0.50 protein_coding synonymous_variant LOW 1401T>C Asp467Asp
M0121565 PGLKKAKK_00005 8678 3 Oral 0.50 protein_coding synonymous_variant LOW 1830A>G Gln610Gln
M0121566 PGLKKAKK_00005 8828 3 Oral 0.50 protein_coding synonymous_variant LOW 1980A>G Ser660Ser
M0121567 PGLKKAKK_00003 8897 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3076A>C None
M0121568 PGLKKAKK_00003 8917 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -3096A>G None
M0121569 PGLKKAKK_00006 9445 3 Oral 0.50 protein_coding synonymous_variant LOW 480T>C Cys160Cys
M0121570 PGLKKAKK_00006 9643 3 Oral 0.50 protein_coding synonymous_variant LOW 678T>A Ala226Ala
M0121571 PGLKKAKK_00001 5917 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -2965G>T None






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