Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2749
  Reference Plasmid   1111525849862021_bin.17__k141_23191
  Reference Plasmid Size   41483
  Reference Plasmid GC Content   0.65
  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
M0054556 JPNPDLLG_00005 3754 8 Skin 0.13 protein_coding synonymous_variant LOW 879T>C Asp293Asp
M0054557 JPNPDLLG_00005 3820 10 Skin 0.16 protein_coding synonymous_variant LOW 945T>C Gly315Gly
M0054558 JPNPDLLG_00006 4623 11 Skin 0.18 protein_coding synonymous_variant LOW 396T>C Ser132Ser
M0054559 JPNPDLLG_00007 5432 12 Skin 0.19 protein_coding synonymous_variant LOW 381G>T Val127Val
M0054560 JPNPDLLG_00009 7510 10 Skin 0.16 protein_coding synonymous_variant LOW 273C>T Asp91Asp
M0054561 JPNPDLLG_00009 7525 10 Skin 0.16 protein_coding synonymous_variant LOW 258G>C Gly86Gly
M0054562 JPNPDLLG_00009 7531 10 Skin 0.16 protein_coding synonymous_variant LOW 252C>T Ile84Ile
M0054563 JPNPDLLG_00010 8449 12 Skin 0.19 protein_coding synonymous_variant LOW 492C>T Tyr164Tyr
M0054564 JPNPDLLG_00010 8479 13 Skin 0.21 protein_coding synonymous_variant LOW 522T>C Gly174Gly
M0054565 JPNPDLLG_00010 8567 15 Skin 0.24 protein_coding synonymous_variant LOW 610T>C Leu204Leu
M0054566 JPNPDLLG_00010 8659 15 Skin 0.24 protein_coding synonymous_variant LOW 702G>C Ala234Ala
M0054567 JPNPDLLG_00010 8692 15 Skin 0.24 protein_coding synonymous_variant LOW 735C>T Pro245Pro
M0054568 JPNPDLLG_00010 8695 15 Skin 0.24 protein_coding synonymous_variant LOW 738C>T Ala246Ala
M0054569 JPNPDLLG_00010 8722 15 Skin 0.24 protein_coding synonymous_variant LOW 765G>C Ala255Ala
M0054570 JPNPDLLG_00010 8728 15 Skin 0.24 protein_coding synonymous_variant LOW 771C>T Phe257Phe
M0054571 JPNPDLLG_00010 8731 15 Skin 0.24 protein_coding synonymous_variant LOW 774G>A Ala258Ala
M0054572 JPNPDLLG_00010 8779 14 Skin 0.23 protein_coding synonymous_variant LOW 822C>T Val274Val
M0054573 JPNPDLLG_00010 9319 17 Skin 0.27 protein_coding synonymous_variant LOW 1362C>A Ala454Ala
M0054574 JPNPDLLG_00010 9391 14 Skin 0.23 protein_coding synonymous_variant LOW 1434A>G Gly478Gly
M0054575 JPNPDLLG_00010 9392 14 Skin 0.23 protein_coding missense_variant MODERATE 1435A>G Ser479Gly
M0054576 JPNPDLLG_00010 9393 14 Skin 0.23 protein_coding missense_variant MODERATE 1436G>C Ser479Thr
M0054577 JPNPDLLG_00011 9891 4 Skin 0.06 protein_coding synonymous_variant LOW 264G>C Val88Val
M0054578 JPNPDLLG_00016 15511 21 Skin 0.34 protein_coding missense_variant MODERATE 2093G>T Ser698Ile
M0054579 JPNPDLLG_00018 15868 21 Skin 0.34 protein_coding missense_variant MODERATE 157G>A Asp53Asn
M0054580 JPNPDLLG_00019 19111 10 Skin 0.16 protein_coding upstream_gene_variant MODIFIER -2549G>C None
M0054581 JPNPDLLG_00019 19135 10 Skin 0.16 protein_coding upstream_gene_variant MODIFIER -2573C>A None
M0054582 JPNPDLLG_00019 19146 10 Skin 0.16 protein_coding upstream_gene_variant MODIFIER -2584G>T None
M0054583 JPNPDLLG_00012 10542 4 Skin 0.06 protein_coding missense_variant MODERATE 118C>G His40Asp
M0054584 JPNPDLLG_00002 1169 3 Skin 0.05 protein_coding synonymous_variant LOW 126T>G Pro42Pro
M0054585 JPNPDLLG_00002 1235 3 Skin 0.05 protein_coding synonymous_variant LOW 192T>C Gly64Gly
M0054586 JPNPDLLG_00002 1253 3 Skin 0.05 protein_coding synonymous_variant LOW 210C>G Val70Val
M0054587 JPNPDLLG_00002 1271 3 Skin 0.05 protein_coding synonymous_variant LOW 228A>G Gly76Gly
M0054588 JPNPDLLG_00002 1272 3 Skin 0.05 protein_coding missense_variant MODERATE 229T>C Ser77Pro
M0054589 JPNPDLLG_00002 1273 3 Skin 0.05 protein_coding missense_variant MODERATE 230C>G Ser77Trp
M0054590 JPNPDLLG_00002 1274 3 Skin 0.05 protein_coding synonymous_variant LOW 231G>C Ser77Ser
M0054591 JPNPDLLG_00002 1275 3 Skin 0.05 protein_coding synonymous_variant LOW 232T>C Leu78Leu
M0054592 JPNPDLLG_00002 1295 3 Skin 0.05 protein_coding synonymous_variant LOW 252C>G Ala84Ala
M0054593 JPNPDLLG_00002 1334 3 Skin 0.05 protein_coding synonymous_variant LOW 291C>T Tyr97Tyr
M0054594 JPNPDLLG_00002 1367 3 Skin 0.05 protein_coding synonymous_variant LOW 324C>T Ser108Ser
M0054595 JPNPDLLG_00003 2134 4 Skin 0.06 protein_coding synonymous_variant LOW 402G>T Leu134Leu
M0054596 JPNPDLLG_00023 23009 5 Skin 0.08 protein_coding synonymous_variant LOW 519T>C Cys173Cys
M0054597 JPNPDLLG_00023 23051 5 Skin 0.08 protein_coding synonymous_variant LOW 561C>T Asp187Asp
M0054598 JPNPDLLG_00015 13054 5 Skin 0.08 protein_coding synonymous_variant LOW 103A>C Arg35Arg
M0054599 JPNPDLLG_00015 13065 5 Skin 0.08 protein_coding synonymous_variant LOW 114A>G Leu38Leu
M0054600 JPNPDLLG_00016 14465 3 Skin 0.05 protein_coding synonymous_variant LOW 1047C>T Ala349Ala
M0054601 JPNPDLLG_00016 14468 3 Skin 0.05 protein_coding synonymous_variant LOW 1050G>T Pro350Pro
M0054602 JPNPDLLG_00016 14508 3 Skin 0.05 protein_coding missense_variant MODERATE 1090A>G Met364Val
M0054603 JPNPDLLG_00016 14525 3 Skin 0.05 protein_coding synonymous_variant LOW 1107T>C Gly369Gly
M0054604 JPNPDLLG_00020 17600 3 Skin 0.05 protein_coding synonymous_variant LOW 438T>C Ala146Ala
M0054605 JPNPDLLG_00010 9265 3 Skin 0.05 protein_coding synonymous_variant LOW 1308C>T Arg436Arg
M0054606 JPNPDLLG_00010 9266 3 Skin 0.05 protein_coding missense_variant MODERATE 1309C>G Gln437Glu
M0054607 JPNPDLLG_00010 9271 3 Skin 0.05 protein_coding synonymous_variant LOW 1314G>A Arg438Arg
M0054608 JPNPDLLG_00010 9274 3 Skin 0.05 protein_coding synonymous_variant LOW 1317C>G Leu439Leu
M0054609 JPNPDLLG_00010 9277 3 Skin 0.05 protein_coding synonymous_variant LOW 1320T>C Tyr440Tyr
M0054610 JPNPDLLG_00020 17494 3 Skin 0.05 protein_coding missense_variant MODERATE 332A>C Asn111Thr
M0054611 JPNPDLLG_00020 17501 3 Skin 0.05 protein_coding synonymous_variant LOW 339G>C Val113Val
M0054612 JPNPDLLG_00020 17510 3 Skin 0.05 protein_coding synonymous_variant LOW 348A>C Pro116Pro
M0054613 JPNPDLLG_00020 17534 3 Skin 0.05 protein_coding synonymous_variant LOW 372C>T Val124Val
M0054614 JPNPDLLG_00020 17538 3 Skin 0.05 protein_coding missense_variant MODERATE 376A>G Ser126Gly
M0054615 JPNPDLLG_00020 17540 3 Skin 0.05 protein_coding synonymous_variant LOW 378C>T Ser126Ser






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
JPNPDLLG_00002 WAC23318.1|GH25 93 1.82e-156 1 230 1 1





        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