Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C2330
  Reference Plasmid   1111525849766731_bin.31__k141_3382
  Reference Plasmid Size   7403
  Reference Plasmid GC Content   0.35
  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
M0037529 LHHLNNDN_00005 4427 6 Skin 0.17 protein_coding upstream_gene_variant MODIFIER -1453A>G None
M0037530 LHHLNNDN_00005 4466 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -1492G>A None
M0037531 LHHLNNDN_00005 4469 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -1495A>G None
M0037532 LHHLNNDN_00009 5255 3 Skin 0.09 protein_coding synonymous_variant LOW 271C>A Arg91Arg
M0037533 LHHLNNDN_00010 5640 3 Skin 0.09 protein_coding missense_variant MODERATE 68C>T Ala23Val
M0037534 LHHLNNDN_00005 5714 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -2740T>C None
M0037535 LHHLNNDN_00011 6454 4 Skin 0.11 protein_coding missense_variant MODERATE 287G>A Arg96Lys
M0037536 LHHLNNDN_00011 6625 4 Skin 0.11 protein_coding missense_variant MODERATE 116G>A Ser39Asn
M0037537 LHHLNNDN_00012 7065 8 Skin 0.23 protein_coding missense_variant MODERATE 97A>G Lys33Glu
M0037538 LHHLNNDN_00011 6254 14 Skin 0.40 protein_coding missense_variant MODERATE 487T>C Phe163Leu
M0037539 LHHLNNDN_00011 6314 6 Skin 0.17 protein_coding missense_variant MODERATE 427G>A Asp143Asn
M0037540 LHHLNNDN_00011 6321 6 Skin 0.17 protein_coding synonymous_variant LOW 420C>T Arg140Arg
M0037541 LHHLNNDN_00001 254 9 Skin 0.26 protein_coding missense_variant MODERATE 182G>A Gly61Asp
M0037542 LHHLNNDN_00002 327 8 Skin 0.23 protein_coding upstream_gene_variant MODIFIER -9T>C None
M0037543 LHHLNNDN_00003 1580 7 Skin 0.20 protein_coding synonymous_variant LOW 336G>A Leu112Leu
M0037544 LHHLNNDN_00004 1795 9 Skin 0.26 protein_coding upstream_gene_variant MODIFIER -869C>T None
M0037545 LHHLNNDN_00004 1931 5 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -733A>G None
M0037546 LHHLNNDN_00004 1932 5 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -732G>T None
M0037547 LHHLNNDN_00004 1935 5 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -729T>A None
M0037548 LHHLNNDN_00004 2378 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -286G>A None
M0037549 LHHLNNDN_00004 2468 4 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -196A>G None
M0037550 LHHLNNDN_00006 3015 3 Skin 0.09 protein_coding missense_variant MODERATE 170G>T Ser57Ile
M0037551 LHHLNNDN_00005 3468 4 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -494G>A None
M0037552 LHHLNNDN_00002 1073 5 Skin 0.14 protein_coding synonymous_variant LOW 738T>C Ser246Ser
M0037553 LHHLNNDN_00003 1358 3 Skin 0.09 protein_coding synonymous_variant LOW 114G>A Gln38Gln
M0037554 LHHLNNDN_00003 1436 3 Skin 0.09 protein_coding synonymous_variant LOW 192G>A Ser64Ser
M0037555 LHHLNNDN_00004 2633 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -31G>A None
M0037556 LHHLNNDN_00006 3079 4 Skin 0.11 protein_coding missense_variant MODERATE 106G>A Ala36Thr
M0037557 LHHLNNDN_00005 3443 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -469A>C None
M0037558 LHHLNNDN_00005 3590 3 Skin 0.09 protein_coding upstream_gene_variant MODIFIER -616T>C None
M0037559 LHHLNNDN_00005 3674 5 Skin 0.14 protein_coding upstream_gene_variant MODIFIER -700G>A None
M0037560 LHHLNNDN_00005 3816 4 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -842C>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