Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1804
  Reference Plasmid   1111525849645395_bin.4__k141_520334
  Reference Plasmid Size   23885
  Reference Plasmid GC Content   0.32
  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
M0016967 GPDCBKDG_00019 16164 4 Skin 0.33 protein_coding missense_variant MODERATE 611C>T Thr204Ile
M0016968 GPDCBKDG_00019 16203 4 Skin 0.33 protein_coding missense_variant MODERATE 572T>C Val191Ala
M0016969 GPDCBKDG_00019 16227 4 Skin 0.33 protein_coding missense_variant MODERATE 548A>G Asp183Gly
M0016970 GPDCBKDG_00019 16256 4 Skin 0.33 protein_coding synonymous_variant LOW 519G>A Ala173Ala
M0016971 GPDCBKDG_00019 16270 4 Skin 0.33 protein_coding missense_variant MODERATE 505A>G Ile169Val
M0016972 GPDCBKDG_00019 16299 4 Skin 0.33 protein_coding missense_variant MODERATE 476C>T Ala159Val
M0016973 GPDCBKDG_00019 16333 4 Skin 0.33 protein_coding missense_variant MODERATE 442T>G Phe148Val
M0016974 GPDCBKDG_00019 16602 4 Skin 0.33 protein_coding missense_variant MODERATE 173T>C Ile58Thr
M0016975 GPDCBKDG_00014 17021 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4266T>C None
M0016976 GPDCBKDG_00014 17058 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4303C>T None
M0016977 GPDCBKDG_00014 17096 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4341T>C None
M0016978 GPDCBKDG_00020 17241 4 Skin 0.33 protein_coding missense_variant MODERATE 136G>A Asp46Asn
M0016979 GPDCBKDG_00020 17286 4 Skin 0.33 protein_coding missense_variant MODERATE 181G>A Asp61Asn
M0016980 GPDCBKDG_00020 17293 4 Skin 0.33 protein_coding missense_variant MODERATE 188G>A Gly63Glu
M0016981 GPDCBKDG_00020 17330 4 Skin 0.33 protein_coding synonymous_variant LOW 225C>T Asp75Asp
M0016982 GPDCBKDG_00020 17335 4 Skin 0.33 protein_coding missense_variant MODERATE 230A>G Asp77Gly
M0016983 GPDCBKDG_00020 17616 4 Skin 0.33 protein_coding missense_variant MODERATE 511A>G Asn171Asp
M0016984 GPDCBKDG_00020 17661 4 Skin 0.33 protein_coding missense_variant MODERATE 556G>A Val186Ile
M0016985 GPDCBKDG_00014 17721 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4966C>T None
M0016986 GPDCBKDG_00016 17796 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2904C>T None
M0016987 GPDCBKDG_00016 17815 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2923C>A None
M0016988 GPDCBKDG_00016 17848 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -2956C>T None
M0016989 GPDCBKDG_00016 18029 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3137A>G None
M0016990 GPDCBKDG_00021 18116 4 Skin 0.33 protein_coding missense_variant MODERATE 35G>C Gly12Ala
M0016991 GPDCBKDG_00021 18151 4 Skin 0.33 protein_coding missense_variant MODERATE 70A>G Thr24Ala
M0016992 GPDCBKDG_00021 18199 4 Skin 0.33 protein_coding synonymous_variant LOW 118C>T Leu40Leu
M0016993 GPDCBKDG_00016 18826 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3934C>T None
M0016994 GPDCBKDG_00016 18860 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3968A>G None
M0016995 GPDCBKDG_00022 19146 4 Skin 0.33 protein_coding missense_variant MODERATE 244T>C Tyr82His
M0016996 GPDCBKDG_00022 19166 4 Skin 0.33 protein_coding missense_variant MODERATE 264T>A His88Gln
M0016997 GPDCBKDG_00022 19186 4 Skin 0.33 protein_coding missense_variant MODERATE 284G>A Gly95Glu
M0016998 GPDCBKDG_00022 19220 4 Skin 0.33 protein_coding synonymous_variant LOW 318G>A Glu106Glu
M0016999 GPDCBKDG_00024 20207 4 Skin 0.33 protein_coding missense_variant MODERATE 33A>G Ile11Met
M0017000 GPDCBKDG_00019 20272 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3498C>A None
M0017001 GPDCBKDG_00019 20274 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3500G>A None
M0017002 GPDCBKDG_00019 20286 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3512G>A None
M0017003 GPDCBKDG_00019 20336 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3562C>A None
M0017004 GPDCBKDG_00019 20358 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3584C>A None
M0017005 GPDCBKDG_00019 20376 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3602T>C None
M0017006 GPDCBKDG_00019 20412 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -3638T>C None
M0017007 GPDCBKDG_00016 14785 3 Skin 0.25 protein_coding synonymous_variant LOW 108T>C Asp36Asp
M0017008 GPDCBKDG_00016 14820 3 Skin 0.25 protein_coding missense_variant MODERATE 73G>T Val25Phe
M0017009 GPDCBKDG_00016 14830 3 Skin 0.25 protein_coding synonymous_variant LOW 63C>T Tyr21Tyr
M0017010 GPDCBKDG_00009 14928 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4639C>T None
M0017011 GPDCBKDG_00009 14990 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4701C>T None
M0017012 GPDCBKDG_00017 15032 3 Skin 0.25 protein_coding stop_lost&splice_region_variant HIGH 133T>C Ter45Glnext*?
M0017013 GPDCBKDG_00017 15121 4 Skin 0.33 protein_coding missense_variant MODERATE 44T>A Val15Glu
M0017014 GPDCBKDG_00017 15157 4 Skin 0.33 protein_coding missense_variant MODERATE 8T>C Ile3Thr
M0017015 GPDCBKDG_00009 15205 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4916G>A None
M0017016 GPDCBKDG_00009 15266 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4977T>C None
M0017017 GPDCBKDG_00009 15278 4 Skin 0.33 protein_coding upstream_gene_variant MODIFIER -4989T>C None
M0017018 GPDCBKDG_00018 15732 3 Skin 0.25 protein_coding missense_variant MODERATE 320C>T Ser107Leu
M0017019 GPDCBKDG_00011 15924 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4461G>A None
M0017020 GPDCBKDG_00011 15947 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4484T>C None
M0017021 GPDCBKDG_00011 15958 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4495G>A None
M0017022 GPDCBKDG_00019 15962 3 Skin 0.25 protein_coding stop_lost&splice_region_variant HIGH 813A>T Ter271Tyrext*?
M0017023 GPDCBKDG_00019 15972 3 Skin 0.25 protein_coding missense_variant MODERATE 803A>C Asp268Ala
M0017024 GPDCBKDG_00019 15980 3 Skin 0.25 protein_coding synonymous_variant LOW 795A>T Gly265Gly
M0017025 GPDCBKDG_00019 16000 3 Skin 0.25 protein_coding missense_variant MODERATE 775T>A Ser259Thr
M0017026 GPDCBKDG_00019 16031 3 Skin 0.25 protein_coding synonymous_variant LOW 744T>A Pro248Pro
M0017027 GPDCBKDG_00019 16050 3 Skin 0.25 protein_coding missense_variant MODERATE 725C>T Thr242Met
M0017028 GPDCBKDG_00019 16056 3 Skin 0.25 protein_coding missense_variant MODERATE 719T>C Met240Thr
M0017029 GPDCBKDG_00019 16116 3 Skin 0.25 protein_coding missense_variant MODERATE 659T>C Ile220Thr
M0017030 GPDCBKDG_00019 16476 3 Skin 0.25 protein_coding missense_variant MODERATE 299C>T Ala100Val
M0017031 GPDCBKDG_00019 16666 3 Skin 0.25 protein_coding missense_variant MODERATE 109C>T His37Tyr
M0017032 GPDCBKDG_00019 16680 3 Skin 0.25 protein_coding missense_variant MODERATE 95T>A Val32Glu
M0017033 GPDCBKDG_00019 16685 3 Skin 0.25 protein_coding synonymous_variant LOW 90C>A Ser30Ser
M0017034 GPDCBKDG_00020 17412 3 Skin 0.25 protein_coding missense_variant MODERATE 307A>G Ser103Gly
M0017035 GPDCBKDG_00016 17932 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -3040G>T None
M0017036 GPDCBKDG_00021 18255 3 Skin 0.25 protein_coding synonymous_variant LOW 174G>A Leu58Leu
M0017037 GPDCBKDG_00021 18275 3 Skin 0.25 protein_coding stop_gained HIGH 194C>A Ser65*
M0017038 GPDCBKDG_00021 18363 3 Skin 0.25 protein_coding missense_variant MODERATE 282A>T Glu94Asp
M0017039 GPDCBKDG_00021 18619 3 Skin 0.25 protein_coding missense_variant MODERATE 538C>T Arg180Cys
M0017040 GPDCBKDG_00021 18701 3 Skin 0.25 protein_coding missense_variant MODERATE 620T>C Val207Ala
M0017041 GPDCBKDG_00022 18939 3 Skin 0.25 protein_coding missense_variant MODERATE 37G>A Ala13Thr
M0017042 GPDCBKDG_00022 19037 3 Skin 0.25 protein_coding missense_variant MODERATE 135G>A Met45Ile
M0017043 GPDCBKDG_00022 19373 3 Skin 0.25 protein_coding stop_gained HIGH 471G>A Trp157*
M0017044 GPDCBKDG_00022 19375 3 Skin 0.25 protein_coding missense_variant MODERATE 473A>G Asn158Ser
M0017045 GPDCBKDG_00016 19447 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4555C>G None
M0017046 GPDCBKDG_00023 19495 3 Skin 0.25 protein_coding missense_variant MODERATE 35T>C Met12Thr
M0017047 GPDCBKDG_00023 19496 3 Skin 0.25 protein_coding missense_variant MODERATE 36G>A Met12Ile
M0017048 GPDCBKDG_00023 19572 3 Skin 0.25 protein_coding missense_variant MODERATE 112A>G Ile38Val
M0017049 GPDCBKDG_00024 19689 3 Skin 0.25 protein_coding missense_variant MODERATE 551A>T Asp184Val
M0017050 GPDCBKDG_00024 19778 3 Skin 0.25 protein_coding synonymous_variant LOW 462T>C Asp154Asp
M0017051 GPDCBKDG_00024 19793 3 Skin 0.25 protein_coding synonymous_variant LOW 447A>G Arg149Arg
M0017052 GPDCBKDG_00024 19811 3 Skin 0.25 protein_coding synonymous_variant LOW 429C>T Asn143Asn
M0017053 GPDCBKDG_00024 19841 3 Skin 0.25 protein_coding synonymous_variant LOW 399G>A Lys133Lys
M0017054 GPDCBKDG_00024 19858 3 Skin 0.25 protein_coding missense_variant MODERATE 382A>G Asn128Asp
M0017055 GPDCBKDG_00024 19892 3 Skin 0.25 protein_coding synonymous_variant LOW 348T>A Leu116Leu
M0017056 GPDCBKDG_00024 19906 3 Skin 0.25 protein_coding missense_variant MODERATE 334G>A Gly112Arg
M0017057 GPDCBKDG_00024 19933 3 Skin 0.25 protein_coding missense_variant MODERATE 307G>A Val103Met
M0017058 GPDCBKDG_00024 19940 3 Skin 0.25 protein_coding synonymous_variant LOW 300T>C Ile100Ile
M0017059 GPDCBKDG_00024 20028 3 Skin 0.25 protein_coding missense_variant MODERATE 212C>T Ala71Val
M0017060 GPDCBKDG_00024 20087 3 Skin 0.25 protein_coding synonymous_variant LOW 153A>G Val51Val
M0017061 GPDCBKDG_00008 13547 3 Skin 0.25 protein_coding upstream_gene_variant MODIFIER -4932C>A None
M0017062 GPDCBKDG_00016 13937 3 Skin 0.25 protein_coding missense_variant MODERATE 956A>G Asp319Gly
M0017063 GPDCBKDG_00016 13960 3 Skin 0.25 protein_coding synonymous_variant LOW 933T>C Gly311Gly
M0017064 GPDCBKDG_00016 13996 3 Skin 0.25 protein_coding synonymous_variant LOW 897A>C Val299Val
M0017065 GPDCBKDG_00016 14012 3 Skin 0.25 protein_coding missense_variant MODERATE 881T>C Ile294Thr
M0017066 GPDCBKDG_00016 14039 3 Skin 0.25 protein_coding missense_variant MODERATE 854A>G Asp285Gly
M0017067 GPDCBKDG_00016 14056 3 Skin 0.25 protein_coding synonymous_variant LOW 837A>T Gly279Gly
M0017068 GPDCBKDG_00016 14275 3 Skin 0.25 protein_coding synonymous_variant LOW 618C>T Ile206Ile
M0017069 GPDCBKDG_00016 14370 3 Skin 0.25 protein_coding missense_variant MODERATE 523G>A Ala175Thr
M0017070 GPDCBKDG_00016 14372 3 Skin 0.25 protein_coding missense_variant MODERATE 521G>A Arg174His
M0017071 GPDCBKDG_00016 14402 3 Skin 0.25 protein_coding missense_variant MODERATE 491G>C Gly164Ala






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
GPDCBKDG_00010 PHI:6628 bcaP 86.8 6.8e-14 1 38 0.7308 0.7552 rodents skin infection; food poisoning; respiratory disease BCAA transporter unaffected pathogenicity
GPDCBKDG_00012 PHI:6628 bcaP 84.7 3.3e-102 2 223 0.9955 0.7552 rodents skin infection; food poisoning; respiratory disease BCAA transporter unaffected pathogenicity
GPDCBKDG_00013 PHI:6628 bcaP 82.7 6.6e-45 1 104 1.0000 0.7552 rodents skin infection; food poisoning; respiratory disease BCAA transporter unaffected pathogenicity






        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