Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3107
  Reference Plasmid   MET0199_bin.11__k81_31621
  Reference Plasmid Size   3342
  Reference Plasmid GC Content   0.69
  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
M0075586 PLMNPGAG_00002 896 6 Skin 0.33 protein_coding synonymous_variant LOW 489T>C Asn163Asn
M0075587 PLMNPGAG_00002 1324 6 Skin 0.33 protein_coding missense_variant MODERATE 61T>C Ser21Pro
M0075588 PLMNPGAG_00003 1821 11 Skin 0.61 protein_coding missense_variant MODERATE 289A>G Lys97Glu
M0075589 PLMNPGAG_00003 1831 11 Skin 0.61 protein_coding synonymous_variant LOW 279A>G Val93Val
M0075590 PLMNPGAG_00003 1846 4 Skin 0.22 protein_coding synonymous_variant LOW 264T>C Gly88Gly
M0075591 PLMNPGAG_00003 1861 11 Skin 0.61 protein_coding synonymous_variant LOW 249T>C Pro83Pro
M0075592 PLMNPGAG_00003 1886 8 Skin 0.44 protein_coding missense_variant MODERATE 224C>A Thr75Lys
M0075593 PLMNPGAG_00003 1887 8 Skin 0.44 protein_coding missense_variant MODERATE 223A>G Thr75Ala
M0075594 PLMNPGAG_00003 1889 11 Skin 0.61 protein_coding missense_variant MODERATE 221A>C Lys74Thr
M0075595 PLMNPGAG_00003 1896 11 Skin 0.61 protein_coding missense_variant MODERATE 214G>A Ala72Thr
M0075596 PLMNPGAG_00002 2182 10 Skin 0.56 protein_coding upstream_gene_variant MODIFIER -798C>A None
M0075597 PLMNPGAG_00002 2214 7 Skin 0.39 protein_coding upstream_gene_variant MODIFIER -830C>T None
M0075598 PLMNPGAG_00002 2247 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -863T>C None
M0075599 PLMNPGAG_00002 2256 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -872C>T None
M0075600 PLMNPGAG_00002 2416 4 Skin 0.22 protein_coding upstream_gene_variant MODIFIER -1032C>T None
M0075601 PLMNPGAG_00004 2601 12 Skin 0.67 protein_coding synonymous_variant LOW 48T>C Gly16Gly
M0075602 PLMNPGAG_00005 2856 12 Skin 0.67 protein_coding stop_lost&splice_region_variant HIGH 321A>G Ter107Trpext*?
M0075603 PLMNPGAG_00005 2912 3 Skin 0.17 protein_coding missense_variant MODERATE 265T>G Cys89Gly
M0075604 PLMNPGAG_00005 2948 13 Skin 0.72 protein_coding missense_variant MODERATE 229A>G Thr77Ala
M0075605 PLMNPGAG_00005 2962 13 Skin 0.72 protein_coding missense_variant MODERATE 215G>A Gly72Asp
M0075606 PLMNPGAG_00005 3056 4 Skin 0.22 protein_coding missense_variant MODERATE 121C>T Leu41Phe
M0075607 PLMNPGAG_00002 3257 6 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -1873C>G None
M0075608 PLMNPGAG_00002 3299 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -1915C>A None
M0075609 PLMNPGAG_00001 31 3 Skin 0.17 protein_coding start_lost HIGH 1A>G Met1?
M0075610 PLMNPGAG_00001 71 4 Skin 0.22 protein_coding missense_variant MODERATE 41C>A Ala14Glu
M0075611 PLMNPGAG_00001 111 3 Skin 0.17 protein_coding synonymous_variant LOW 81C>T Asp27Asp
M0075612 PLMNPGAG_00001 123 6 Skin 0.33 protein_coding synonymous_variant LOW 93T>C Pro31Pro
M0075613 PLMNPGAG_00001 124 6 Skin 0.33 protein_coding missense_variant MODERATE 94T>C Trp32Arg
M0075614 PLMNPGAG_00001 168 3 Skin 0.17 protein_coding synonymous_variant LOW 138C>T Gly46Gly
M0075615 PLMNPGAG_00001 219 8 Skin 0.44 protein_coding synonymous_variant LOW 189T>C Ala63Ala
M0075616 PLMNPGAG_00001 304 5 Skin 0.28 protein_coding missense_variant MODERATE 274G>T Val92Phe
M0075617 PLMNPGAG_00001 404 5 Skin 0.28 protein_coding missense_variant MODERATE 374G>T Gly125Val
M0075618 PLMNPGAG_00002 554 9 Skin 0.50 protein_coding synonymous_variant LOW 831T>C Asn277Asn
M0075619 PLMNPGAG_00002 566 8 Skin 0.44 protein_coding synonymous_variant LOW 819T>C Pro273Pro
M0075620 PLMNPGAG_00002 866 9 Skin 0.50 protein_coding synonymous_variant LOW 519G>C Thr173Thr
M0075621 PLMNPGAG_00002 1028 4 Skin 0.22 protein_coding synonymous_variant LOW 357A>G Gln119Gln
M0075622 PLMNPGAG_00002 1034 4 Skin 0.22 protein_coding synonymous_variant LOW 351C>T Thr117Thr
M0075623 PLMNPGAG_00005 2960 3 Skin 0.17 protein_coding missense_variant MODERATE 217C>T Pro73Ser
M0075624 PLMNPGAG_00003 1975 5 Skin 0.28 protein_coding synonymous_variant LOW 135G>A Ser45Ser
M0075625 PLMNPGAG_00003 2008 11 Skin 0.61 protein_coding synonymous_variant LOW 102A>G Gly34Gly
M0075626 PLMNPGAG_00003 2014 4 Skin 0.22 protein_coding synonymous_variant LOW 96C>T Cys32Cys
M0075627 PLMNPGAG_00005 2884 5 Skin 0.28 protein_coding missense_variant MODERATE 293T>C Leu98Pro
M0075628 PLMNPGAG_00002 3320 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -1936C>T None
M0075629 PLMNPGAG_00005 3173 3 Skin 0.17 protein_coding missense_variant MODERATE 4A>G Thr2Ala
M0075630 PLMNPGAG_00005 3176 3 Skin 0.17 protein_coding start_lost HIGH 1A>G Met1?
M0075631 PLMNPGAG_00002 3245 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -1861C>T None
M0075632 PLMNPGAG_00005 3135 3 Skin 0.17 protein_coding synonymous_variant LOW 42C>T Val14Val
M0075633 PLMNPGAG_00001 146 3 Skin 0.17 protein_coding missense_variant MODERATE 116A>G Glu39Gly
M0075634 PLMNPGAG_00001 243 6 Skin 0.33 protein_coding synonymous_variant LOW 213G>A Gly71Gly
M0075635 PLMNPGAG_00002 758 6 Skin 0.33 protein_coding synonymous_variant LOW 627G>C Gly209Gly
M0075636 PLMNPGAG_00003 1822 3 Skin 0.17 protein_coding synonymous_variant LOW 288G>A Pro96Pro
M0075637 PLMNPGAG_00005 2957 3 Skin 0.17 protein_coding missense_variant MODERATE 220G>A Val74Ile
M0075638 PLMNPGAG_00001 357 5 Skin 0.28 protein_coding synonymous_variant LOW 327A>C Ser109Ser
M0075639 PLMNPGAG_00001 388 4 Skin 0.22 protein_coding missense_variant MODERATE 358A>G Thr120Ala
M0075640 PLMNPGAG_00001 395 6 Skin 0.33 protein_coding missense_variant MODERATE 365G>C Gly122Ala
M0075641 PLMNPGAG_00002 641 6 Skin 0.33 protein_coding synonymous_variant LOW 744G>C Val248Val
M0075642 PLMNPGAG_00002 560 3 Skin 0.17 protein_coding synonymous_variant LOW 825C>T Thr275Thr
M0075643 PLMNPGAG_00002 983 3 Skin 0.17 protein_coding synonymous_variant LOW 402C>T Ala134Ala
M0075644 PLMNPGAG_00002 1019 3 Skin 0.17 protein_coding synonymous_variant LOW 366G>T Ala122Ala
M0075645 PLMNPGAG_00002 1127 3 Skin 0.17 protein_coding synonymous_variant LOW 258G>A Gly86Gly
M0075646 PLMNPGAG_00002 1183 3 Skin 0.17 protein_coding missense_variant MODERATE 202T>C Ser68Pro
M0075647 PLMNPGAG_00002 1223 3 Skin 0.17 protein_coding synonymous_variant LOW 162G>A Pro54Pro
M0075648 PLMNPGAG_00002 1292 3 Skin 0.17 protein_coding synonymous_variant LOW 93T>C Cys31Cys
M0075649 PLMNPGAG_00002 1331 3 Skin 0.17 protein_coding synonymous_variant LOW 54T>C Thr18Thr
M0075650 PLMNPGAG_00002 1364 3 Skin 0.17 protein_coding synonymous_variant LOW 21G>A Leu7Leu
M0075651 PLMNPGAG_00002 1386 3 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -2G>A None
M0075652 PLMNPGAG_00003 1449 3 Skin 0.17 protein_coding missense_variant MODERATE 661T>G Ser221Ala
M0075653 PLMNPGAG_00003 1492 3 Skin 0.17 protein_coding synonymous_variant LOW 618T>G Val206Val
M0075654 PLMNPGAG_00003 1512 3 Skin 0.17 protein_coding missense_variant MODERATE 598A>G Ile200Val
M0075655 PLMNPGAG_00003 1521 3 Skin 0.17 protein_coding missense_variant MODERATE 589A>C Lys197Gln
M0075656 PLMNPGAG_00003 1702 3 Skin 0.17 protein_coding synonymous_variant LOW 408A>G Val136Val
M0075657 PLMNPGAG_00003 1714 3 Skin 0.17 protein_coding synonymous_variant LOW 396T>C Pro132Pro
M0075658 PLMNPGAG_00003 1762 3 Skin 0.17 protein_coding synonymous_variant LOW 348T>C Tyr116Tyr
M0075659 PLMNPGAG_00002 770 5 Skin 0.28 protein_coding synonymous_variant LOW 615T>C Asp205Asp
M0075660 PLMNPGAG_00002 608 3 Skin 0.17 protein_coding synonymous_variant LOW 777G>A Glu259Glu






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