Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C3418
  Reference Plasmid   SRR2005651_bin.2__k91_13495
  Reference Plasmid Size   3237
  Reference Plasmid GC Content   0.34
  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
M0117207 GGPALJII_00001 147 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -24C>T None
M0117208 GGPALJII_00001 206 4 Skin 0.40 protein_coding synonymous_variant LOW 36A>G Lys12Lys
M0117209 GGPALJII_00001 816 3 Skin 0.30 protein_coding missense_variant MODERATE 646G>A Asp216Asn
M0117210 GGPALJII_00001 822 3 Skin 0.30 protein_coding missense_variant MODERATE 652T>C Tyr218His
M0117211 GGPALJII_00002 1375 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -257A>T None
M0117212 GGPALJII_00002 1393 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -239C>A None
M0117213 GGPALJII_00002 1400 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -232C>T None
M0117214 GGPALJII_00002 1450 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -182T>C None
M0117215 GGPALJII_00002 1482 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -150C>T None
M0117216 GGPALJII_00002 1533 6 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -99G>A None
M0117217 GGPALJII_00002 1537 6 Skin 0.60 protein_coding upstream_gene_variant MODIFIER -95C>T None
M0117218 GGPALJII_00002 1674 3 Skin 0.30 protein_coding synonymous_variant LOW 43C>T Leu15Leu
M0117219 GGPALJII_00002 1724 5 Skin 0.50 protein_coding synonymous_variant LOW 93C>T Gly31Gly
M0117220 GGPALJII_00001 965 6 Skin 0.60 protein_coding synonymous_variant LOW 795T>C Asn265Asn
M0117221 GGPALJII_00001 254 4 Skin 0.40 protein_coding synonymous_variant LOW 84C>T Arg28Arg
M0117222 GGPALJII_00002 2465 4 Skin 0.40 protein_coding synonymous_variant LOW 834G>A Gly278Gly
M0117223 GGPALJII_00002 2484 6 Skin 0.60 protein_coding missense_variant MODERATE 853T>A Tyr285Asn
M0117224 GGPALJII_00002 2537 5 Skin 0.50 protein_coding missense_variant MODERATE 906C>A Asn302Lys
M0117225 GGPALJII_00002 2568 4 Skin 0.40 protein_coding missense_variant MODERATE 937T>A Ser313Thr
M0117226 GGPALJII_00003 2582 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -101T>A None
M0117227 GGPALJII_00003 2625 5 Skin 0.50 protein_coding upstream_gene_variant MODIFIER -58C>T None
M0117228 GGPALJII_00003 2743 6 Skin 0.60 protein_coding missense_variant MODERATE 61A>T Ile21Leu
M0117229 GGPALJII_00001 1073 3 Skin 0.30 protein_coding synonymous_variant LOW 903G>A Gly301Gly
M0117230 GGPALJII_00001 1193 3 Skin 0.30 protein_coding synonymous_variant LOW 1023T>C Ser341Ser
M0117231 GGPALJII_00001 1204 3 Skin 0.30 protein_coding missense_variant MODERATE 1034G>A Ser345Asn
M0117232 GGPALJII_00001 1217 3 Skin 0.30 protein_coding synonymous_variant LOW 1047A>G Gln349Gln
M0117233 GGPALJII_00002 1576 4 Skin 0.40 protein_coding upstream_gene_variant MODIFIER -56C>T None
M0117234 GGPALJII_00002 1608 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -24T>A None
M0117235 GGPALJII_00002 1890 3 Skin 0.30 protein_coding synonymous_variant LOW 259T>C Leu87Leu
M0117236 GGPALJII_00002 1928 5 Skin 0.50 protein_coding synonymous_variant LOW 297C>T Cys99Cys
M0117237 GGPALJII_00002 1970 5 Skin 0.50 protein_coding synonymous_variant LOW 339A>G Lys113Lys
M0117238 GGPALJII_00002 1977 3 Skin 0.30 protein_coding missense_variant MODERATE 346A>C Ser116Arg
M0117239 GGPALJII_00003 2778 3 Skin 0.30 protein_coding synonymous_variant LOW 96C>A Val32Val
M0117240 GGPALJII_00003 2835 3 Skin 0.30 protein_coding synonymous_variant LOW 153G>A Lys51Lys
M0117241 GGPALJII_00003 2847 4 Skin 0.40 protein_coding synonymous_variant LOW 165T>A Thr55Thr
M0117242 GGPALJII_00003 2866 4 Skin 0.40 protein_coding synonymous_variant LOW 184C>T Leu62Leu
M0117243 GGPALJII_00003 2871 4 Skin 0.40 protein_coding synonymous_variant LOW 189G>A Leu63Leu
M0117244 GGPALJII_00003 2886 3 Skin 0.30 protein_coding synonymous_variant LOW 204G>A Leu68Leu
M0117245 GGPALJII_00003 2982 5 Skin 0.50 protein_coding synonymous_variant LOW 300C>T Gly100Gly
M0117246 GGPALJII_00001 80 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -91A>T None
M0117247 GGPALJII_00001 82 3 Skin 0.30 protein_coding upstream_gene_variant MODIFIER -89A>C None
M0117248 GGPALJII_00001 446 3 Skin 0.30 protein_coding synonymous_variant LOW 276A>G Leu92Leu
M0117249 GGPALJII_00001 483 3 Skin 0.30 protein_coding missense_variant MODERATE 313T>A Ser105Thr
M0117250 GGPALJII_00001 487 3 Skin 0.30 protein_coding missense_variant MODERATE 317T>C Leu106Pro
M0117251 GGPALJII_00001 524 3 Skin 0.30 protein_coding synonymous_variant LOW 354T>C His118His
M0117252 GGPALJII_00001 686 5 Skin 0.50 protein_coding synonymous_variant LOW 516T>C Gly172Gly
M0117253 GGPALJII_00001 710 5 Skin 0.50 protein_coding synonymous_variant LOW 540A>G Ser180Ser
M0117254 GGPALJII_00002 2168 4 Skin 0.40 protein_coding synonymous_variant LOW 537T>A Pro179Pro
M0117255 GGPALJII_00002 2203 5 Skin 0.50 protein_coding missense_variant MODERATE 572A>T Asn191Ile
M0117256 GGPALJII_00001 662 3 Skin 0.30 protein_coding synonymous_variant LOW 492G>A Lys164Lys
M0117257 GGPALJII_00001 665 3 Skin 0.30 protein_coding synonymous_variant LOW 495G>A Ala165Ala
M0117258 GGPALJII_00001 689 3 Skin 0.30 protein_coding synonymous_variant LOW 519G>C Ala173Ala
M0117259 GGPALJII_00001 733 3 Skin 0.30 protein_coding missense_variant MODERATE 563A>G Gln188Arg
M0117260 GGPALJII_00001 746 3 Skin 0.30 protein_coding synonymous_variant LOW 576T>A Gly192Gly
M0117261 GGPALJII_00001 764 3 Skin 0.30 protein_coding synonymous_variant LOW 594C>T Asn198Asn
M0117262 GGPALJII_00003 3078 3 Skin 0.30 protein_coding synonymous_variant LOW 396T>A Thr132Thr
M0117263 GGPALJII_00003 3093 3 Skin 0.30 protein_coding synonymous_variant LOW 411T>C Phe137Phe






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