Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3307
  Reference Plasmid   MGYG000298249__MGYG000298249_126
  Reference Plasmid Size   4753
  Reference Plasmid GC Content   0.61
  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
M0134541 POPBJDGN_00001 340 5 Oral 0.83 protein_coding synonymous_variant LOW 1813T>C Leu605Leu
M0134542 POPBJDGN_00001 446 4 Oral 0.67 protein_coding synonymous_variant LOW 1707A>G Val569Val
M0134543 POPBJDGN_00001 467 4 Oral 0.67 protein_coding synonymous_variant LOW 1686G>C Ala562Ala
M0134544 POPBJDGN_00001 470 4 Oral 0.67 protein_coding synonymous_variant LOW 1683T>A Leu561Leu
M0134545 POPBJDGN_00001 479 3 Oral 0.50 protein_coding synonymous_variant LOW 1674C>G Thr558Thr
M0134546 POPBJDGN_00001 548 4 Oral 0.67 protein_coding synonymous_variant LOW 1605C>A Ala535Ala
M0134547 POPBJDGN_00001 743 5 Oral 0.83 protein_coding synonymous_variant LOW 1410A>G Ser470Ser
M0134548 POPBJDGN_00001 1001 5 Oral 0.83 protein_coding synonymous_variant LOW 1152T>C Phe384Phe
M0134549 POPBJDGN_00001 1130 4 Oral 0.67 protein_coding synonymous_variant LOW 1023C>G Arg341Arg
M0134550 POPBJDGN_00001 1244 4 Oral 0.67 protein_coding synonymous_variant LOW 909T>C Leu303Leu
M0134551 POPBJDGN_00001 1363 4 Oral 0.67 protein_coding missense_variant MODERATE 790G>A Gly264Ser
M0134552 POPBJDGN_00001 1376 4 Oral 0.67 protein_coding synonymous_variant LOW 777T>A Val259Val
M0134553 POPBJDGN_00001 1377 4 Oral 0.67 protein_coding missense_variant MODERATE 776T>C Val259Ala
M0134554 POPBJDGN_00001 1378 4 Oral 0.67 protein_coding missense_variant MODERATE 775G>A Val259Ile
M0134555 POPBJDGN_00001 1565 3 Oral 0.50 protein_coding synonymous_variant LOW 588C>T Asp196Asp
M0134556 POPBJDGN_00001 1676 3 Oral 0.50 protein_coding synonymous_variant LOW 477T>C Gly159Gly
M0134557 POPBJDGN_00001 1682 5 Oral 0.83 protein_coding synonymous_variant LOW 471G>C Ser157Ser
M0134558 POPBJDGN_00001 1709 3 Oral 0.50 protein_coding synonymous_variant LOW 444G>A Arg148Arg
M0134559 POPBJDGN_00002 2273 3 Oral 0.50 protein_coding synonymous_variant LOW 1080T>C Arg360Arg
M0134560 POPBJDGN_00002 2276 3 Oral 0.50 protein_coding synonymous_variant LOW 1077A>C Ala359Ala
M0134561 POPBJDGN_00002 2303 6 Oral 1.00 protein_coding synonymous_variant LOW 1050T>C Gly350Gly
M0134562 POPBJDGN_00002 2429 6 Oral 1.00 protein_coding synonymous_variant LOW 924A>G Lys308Lys
M0134563 POPBJDGN_00002 2516 6 Oral 1.00 protein_coding synonymous_variant LOW 837T>C Gly279Gly
M0134564 POPBJDGN_00002 2567 5 Oral 0.83 protein_coding synonymous_variant LOW 786C>T Ala262Ala
M0134565 POPBJDGN_00002 2612 6 Oral 1.00 protein_coding synonymous_variant LOW 741C>T Thr247Thr
M0134566 POPBJDGN_00002 2645 5 Oral 0.83 protein_coding synonymous_variant LOW 708C>T Gly236Gly
M0134567 POPBJDGN_00002 2773 3 Oral 0.50 protein_coding missense_variant MODERATE 580C>G Leu194Val
M0134568 POPBJDGN_00002 2894 5 Oral 0.83 protein_coding synonymous_variant LOW 459A>G Ala153Ala
M0134569 POPBJDGN_00002 2933 6 Oral 1.00 protein_coding missense_variant MODERATE 420T>G Asp140Glu
M0134570 POPBJDGN_00002 2963 4 Oral 0.67 protein_coding synonymous_variant LOW 390C>T Asp130Asp
M0134571 POPBJDGN_00002 2966 4 Oral 0.67 protein_coding synonymous_variant LOW 387T>C Asp129Asp
M0134572 POPBJDGN_00002 3115 6 Oral 1.00 protein_coding synonymous_variant LOW 238T>C Leu80Leu
M0134573 POPBJDGN_00002 3127 6 Oral 1.00 protein_coding missense_variant MODERATE 226G>A Ala76Thr
M0134574 POPBJDGN_00001 3355 6 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -1203C>A None
M0134575 POPBJDGN_00001 3407 6 Oral 1.00 protein_coding upstream_gene_variant MODIFIER -1255T>G None
M0134576 POPBJDGN_00001 837 3 Oral 0.50 protein_coding missense_variant MODERATE 1316C>G Ala439Gly
M0134577 POPBJDGN_00001 839 4 Oral 0.67 protein_coding synonymous_variant LOW 1314T>C Leu438Leu
M0134578 POPBJDGN_00001 914 4 Oral 0.67 protein_coding synonymous_variant LOW 1239C>T Gly413Gly
M0134579 POPBJDGN_00001 966 4 Oral 0.67 protein_coding missense_variant MODERATE 1187G>T Arg396Leu
M0134580 POPBJDGN_00001 1346 4 Oral 0.67 protein_coding synonymous_variant LOW 807T>C Pro269Pro
M0134581 POPBJDGN_00001 1841 4 Oral 0.67 protein_coding synonymous_variant LOW 312A>G Gln104Gln
M0134582 POPBJDGN_00002 2357 3 Oral 0.50 protein_coding synonymous_variant LOW 996G>A Val332Val
M0134583 POPBJDGN_00002 2654 4 Oral 0.67 protein_coding synonymous_variant LOW 699C>T Ala233Ala
M0134584 POPBJDGN_00002 2703 3 Oral 0.50 protein_coding missense_variant MODERATE 650G>A Ser217Asn
M0134585 POPBJDGN_00002 2741 4 Oral 0.67 protein_coding synonymous_variant LOW 612C>T Ala204Ala
M0134586 POPBJDGN_00002 2771 4 Oral 0.67 protein_coding synonymous_variant LOW 582T>C Leu194Leu
M0134587 POPBJDGN_00002 2813 4 Oral 0.67 protein_coding synonymous_variant LOW 540T>C Pro180Pro
M0134588 POPBJDGN_00002 2912 4 Oral 0.67 protein_coding synonymous_variant LOW 441T>C Arg147Arg
M0134589 POPBJDGN_00002 3095 4 Oral 0.67 protein_coding synonymous_variant LOW 258G>A Gly86Gly
M0134590 POPBJDGN_00002 3173 5 Oral 0.83 protein_coding synonymous_variant LOW 180G>A Glu60Glu
M0134591 POPBJDGN_00002 3224 3 Oral 0.50 protein_coding synonymous_variant LOW 129G>A Ala43Ala
M0134592 POPBJDGN_00002 3275 3 Oral 0.50 protein_coding synonymous_variant LOW 78G>C Val26Val
M0134593 POPBJDGN_00001 3420 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1268T>C None
M0134594 POPBJDGN_00001 3489 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1337G>A None
M0134595 POPBJDGN_00001 3542 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1390G>A None
M0134596 POPBJDGN_00003 3584 3 Oral 0.50 protein_coding synonymous_variant LOW 822C>T Thr274Thr
M0134597 POPBJDGN_00003 3638 5 Oral 0.83 protein_coding synonymous_variant LOW 768T>C Ser256Ser
M0134598 POPBJDGN_00003 3659 5 Oral 0.83 protein_coding synonymous_variant LOW 747T>A Ile249Ile
M0134599 POPBJDGN_00003 3716 4 Oral 0.67 protein_coding synonymous_variant LOW 690A>G Ala230Ala
M0134600 POPBJDGN_00003 3722 3 Oral 0.50 protein_coding synonymous_variant LOW 684A>G Glu228Glu
M0134601 POPBJDGN_00003 3756 5 Oral 0.83 protein_coding missense_variant MODERATE 650T>A Leu217Gln
M0134602 POPBJDGN_00003 3757 5 Oral 0.83 protein_coding missense_variant MODERATE 649C>G Leu217Val
M0134603 POPBJDGN_00003 3788 4 Oral 0.67 protein_coding synonymous_variant LOW 618G>A Gly206Gly
M0134604 POPBJDGN_00003 3806 4 Oral 0.67 protein_coding synonymous_variant LOW 600T>C Cys200Cys
M0134605 POPBJDGN_00003 3830 5 Oral 0.83 protein_coding synonymous_variant LOW 576C>T Pro192Pro
M0134606 POPBJDGN_00002 2473 3 Oral 0.50 protein_coding missense_variant MODERATE 880A>G Ser294Gly
M0134607 POPBJDGN_00002 2578 3 Oral 0.50 protein_coding missense_variant MODERATE 775A>T Thr259Ser
M0134608 POPBJDGN_00002 2579 3 Oral 0.50 protein_coding synonymous_variant LOW 774C>T Thr258Thr
M0134609 POPBJDGN_00002 2732 3 Oral 0.50 protein_coding synonymous_variant LOW 621T>C Asp207Asp
M0134610 POPBJDGN_00002 2735 3 Oral 0.50 protein_coding synonymous_variant LOW 618A>G Ala206Ala
M0134611 POPBJDGN_00002 3047 3 Oral 0.50 protein_coding synonymous_variant LOW 306C>A Gly102Gly
M0134612 POPBJDGN_00001 3550 3 Oral 0.50 protein_coding upstream_gene_variant MODIFIER -1398T>C None
M0134613 POPBJDGN_00003 3674 3 Oral 0.50 protein_coding synonymous_variant LOW 732C>A Ala244Ala
M0134614 POPBJDGN_00003 3695 3 Oral 0.50 protein_coding synonymous_variant LOW 711T>C Arg237Arg
M0134615 POPBJDGN_00003 3768 3 Oral 0.50 protein_coding missense_variant MODERATE 638T>A Val213Asp
M0134616 POPBJDGN_00003 3773 3 Oral 0.50 protein_coding synonymous_variant LOW 633G>T Thr211Thr
M0134617 POPBJDGN_00003 3785 3 Oral 0.50 protein_coding synonymous_variant LOW 621A>C Gly207Gly
M0134618 POPBJDGN_00003 3976 3 Oral 0.50 protein_coding missense_variant MODERATE 430C>A His144Asn
M0134619 POPBJDGN_00003 3992 3 Oral 0.50 protein_coding synonymous_variant LOW 414C>T Ala138Ala
M0134620 POPBJDGN_00003 4139 3 Oral 0.50 protein_coding synonymous_variant LOW 267C>T Val89Val
M0134621 POPBJDGN_00003 4232 3 Oral 0.50 protein_coding synonymous_variant LOW 174A>G Glu58Glu
M0134622 POPBJDGN_00003 4259 3 Oral 0.50 protein_coding synonymous_variant LOW 147T>C Pro49Pro






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