Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C81
  Reference Plasmid   CP040258.1
  Reference Plasmid Size   248441
  Reference Plasmid GC Content   0.41
  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
M0059218 GGCJFBLH_00051 58513 3 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -4713A>T None
M0059219 GGCJFBLH_00056 58626 7 Skin 0.08 protein_coding missense_variant MODERATE 107A>C Asp36Ala
M0059220 GGCJFBLH_00056 58631 6 Skin 0.07 protein_coding synonymous_variant LOW 102G>A Leu34Leu
M0059221 GGCJFBLH_00056 58642 6 Skin 0.07 protein_coding missense_variant MODERATE 91G>A Glu31Lys
M0059222 GGCJFBLH_00056 58690 7 Skin 0.08 protein_coding missense_variant MODERATE 43A>C Ser15Arg
M0059223 GGCJFBLH_00051 58784 5 Skin 0.06 protein_coding upstream_gene_variant MODIFIER -4984T>G None
M0059224 GGCJFBLH_00057 59124 6 Skin 0.07 protein_coding missense_variant MODERATE 241G>A Val81Ile
M0059225 GGCJFBLH_00057 59132 6 Skin 0.07 protein_coding synonymous_variant LOW 249T>G Leu83Leu
M0059226 GGCJFBLH_00057 59135 6 Skin 0.07 protein_coding synonymous_variant LOW 252A>G Ser84Ser
M0059227 GGCJFBLH_00057 59138 6 Skin 0.07 protein_coding synonymous_variant LOW 255C>A Ile85Ile
M0059228 GGCJFBLH_00057 59150 6 Skin 0.07 protein_coding synonymous_variant LOW 267C>T Thr89Thr
M0059229 GGCJFBLH_00057 59159 6 Skin 0.07 protein_coding synonymous_variant LOW 276T>C Ser92Ser
M0059230 GGCJFBLH_00057 59162 6 Skin 0.07 protein_coding synonymous_variant LOW 279C>T Cys93Cys
M0059231 GGCJFBLH_00057 59168 7 Skin 0.08 protein_coding synonymous_variant LOW 285T>A Gly95Gly
M0059232 GGCJFBLH_00057 59192 7 Skin 0.08 protein_coding synonymous_variant LOW 309G>A Lys103Lys
M0059233 GGCJFBLH_00057 59201 7 Skin 0.08 protein_coding synonymous_variant LOW 318T>C Gly106Gly
M0059234 GGCJFBLH_00057 59390 5 Skin 0.06 protein_coding missense_variant MODERATE 507C>G Ile169Met
M0059235 GGCJFBLH_00057 59399 5 Skin 0.06 protein_coding synonymous_variant LOW 516G>A Leu172Leu
M0059236 GGCJFBLH_00057 59405 5 Skin 0.06 protein_coding synonymous_variant LOW 522G>A Leu174Leu
M0059237 GGCJFBLH_00057 59409 5 Skin 0.06 protein_coding missense_variant MODERATE 526G>A Val176Ile
M0059238 GGCJFBLH_00057 59411 5 Skin 0.06 protein_coding synonymous_variant LOW 528T>G Val176Val
M0059239 GGCJFBLH_00057 59414 5 Skin 0.06 protein_coding synonymous_variant LOW 531G>T Pro177Pro
M0059240 GGCJFBLH_00057 59435 5 Skin 0.06 protein_coding synonymous_variant LOW 552G>A Gly184Gly
M0059241 GGCJFBLH_00057 59469 5 Skin 0.06 protein_coding missense_variant MODERATE 586G>A Val196Met
M0059242 GGCJFBLH_00057 59529 7 Skin 0.08 protein_coding missense_variant MODERATE 646A>C Ile216Leu
M0059243 GGCJFBLH_00057 59588 5 Skin 0.06 protein_coding synonymous_variant LOW 705A>C Ala235Ala
M0059244 GGCJFBLH_00057 59591 5 Skin 0.06 protein_coding synonymous_variant LOW 708G>A Pro236Pro
M0059245 GGCJFBLH_00057 59600 5 Skin 0.06 protein_coding synonymous_variant LOW 717T>C Asn239Asn
M0059246 GGCJFBLH_00057 59609 5 Skin 0.06 protein_coding synonymous_variant LOW 726C>G Val242Val
M0059247 GGCJFBLH_00057 59636 5 Skin 0.06 protein_coding synonymous_variant LOW 753T>C Ser251Ser
M0059248 GGCJFBLH_00057 59642 5 Skin 0.06 protein_coding synonymous_variant LOW 759G>T Ser253Ser
M0059249 GGCJFBLH_00057 59645 5 Skin 0.06 protein_coding synonymous_variant LOW 762A>C Leu254Leu
M0059250 GGCJFBLH_00057 59646 5 Skin 0.06 protein_coding missense_variant MODERATE 763G>A Val255Ile
M0059251 GGCJFBLH_00057 59648 5 Skin 0.06 protein_coding synonymous_variant LOW 765C>T Val255Val
M0059252 GGCJFBLH_00057 59684 6 Skin 0.07 protein_coding synonymous_variant LOW 801T>C Thr267Thr
M0059253 GGCJFBLH_00057 59693 6 Skin 0.07 protein_coding synonymous_variant LOW 810T>G Val270Val
M0059254 GGCJFBLH_00057 59699 6 Skin 0.07 protein_coding synonymous_variant LOW 816C>T Tyr272Tyr
M0059255 GGCJFBLH_00057 59720 7 Skin 0.08 protein_coding synonymous_variant LOW 837A>G Val279Val
M0059256 GGCJFBLH_00057 60210 7 Skin 0.08 protein_coding missense_variant MODERATE 1327G>A Val443Ile
M0059257 GGCJFBLH_00057 60563 6 Skin 0.07 protein_coding synonymous_variant LOW 1680A>G Gln560Gln
M0059258 GGCJFBLH_00057 61067 6 Skin 0.07 protein_coding synonymous_variant LOW 2184G>A Gly728Gly
M0059259 GGCJFBLH_00065 65697 8 Skin 0.10 protein_coding synonymous_variant LOW 318T>G Ala106Ala
M0059260 GGCJFBLH_00062 66050 3 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -2133T>C None
M0059261 GGCJFBLH_00062 66075 3 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -2158T>C None
M0059262 GGCJFBLH_00062 66249 9 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -2332T>C None
M0059263 GGCJFBLH_00062 66250 9 Skin 0.11 protein_coding upstream_gene_variant MODIFIER -2333G>A None
M0059264 GGCJFBLH_00065 65994 3 Skin 0.04 protein_coding synonymous_variant LOW 21T>C Asp7Asp
M0059265 GGCJFBLH_00132 140296 4 Skin 0.05 protein_coding upstream_gene_variant MODIFIER -2C>G None
M0059266 GGCJFBLH_00134 141281 4 Skin 0.05 protein_coding missense_variant MODERATE 345A>C Leu115Phe
M0059267 GGCJFBLH_00138 142802 9 Skin 0.11 protein_coding synonymous_variant LOW 522A>G Leu174Leu
M0059268 GGCJFBLH_00095 100224 3 Skin 0.04 protein_coding synonymous_variant LOW 234A>G Glu78Glu
M0059269 GGCJFBLH_00096 100697 3 Skin 0.04 protein_coding synonymous_variant LOW 72G>C Val24Val
M0059270 GGCJFBLH_00096 100718 3 Skin 0.04 protein_coding synonymous_variant LOW 93C>G Ala31Ala
M0059271 GGCJFBLH_00096 101041 3 Skin 0.04 protein_coding missense_variant MODERATE 416T>C Val139Ala
M0059272 GGCJFBLH_00096 101042 3 Skin 0.04 protein_coding synonymous_variant LOW 417C>G Val139Val
M0059273 GGCJFBLH_00096 101438 3 Skin 0.04 protein_coding synonymous_variant LOW 813T>C Ala271Ala
M0059274 GGCJFBLH_00097 101691 3 Skin 0.04 protein_coding missense_variant MODERATE 43C>G Gln15Glu
M0059275 GGCJFBLH_00097 101693 3 Skin 0.04 protein_coding synonymous_variant LOW 45A>G Gln15Gln
M0059276 GGCJFBLH_00097 101756 3 Skin 0.04 protein_coding synonymous_variant LOW 108T>C Asp36Asp
M0059277 GGCJFBLH_00097 101932 3 Skin 0.04 protein_coding missense_variant MODERATE 284C>G Thr95Ser
M0059278 GGCJFBLH_00097 102029 3 Skin 0.04 protein_coding synonymous_variant LOW 381G>A Ser127Ser
M0059279 GGCJFBLH_00097 102085 3 Skin 0.04 protein_coding missense_variant MODERATE 437T>C Leu146Ser
M0059280 GGCJFBLH_00097 102141 3 Skin 0.04 protein_coding synonymous_variant LOW 493T>C Leu165Leu
M0059281 GGCJFBLH_00097 102189 3 Skin 0.04 protein_coding missense_variant MODERATE 541T>G Ser181Ala
M0059282 GGCJFBLH_00097 102242 3 Skin 0.04 protein_coding synonymous_variant LOW 594T>C Asp198Asp
M0059283 GGCJFBLH_00097 102293 3 Skin 0.04 protein_coding synonymous_variant LOW 645A>G Pro215Pro
M0059284 GGCJFBLH_00097 102294 3 Skin 0.04 protein_coding missense_variant MODERATE 646G>A Ala216Thr
M0059285 GGCJFBLH_00098 102761 3 Skin 0.04 protein_coding missense_variant MODERATE 116G>A Arg39His
M0059286 GGCJFBLH_00098 102948 3 Skin 0.04 protein_coding synonymous_variant LOW 303G>T Ser101Ser
M0059287 GGCJFBLH_00098 103081 3 Skin 0.04 protein_coding missense_variant MODERATE 436A>G Ile146Val
M0059288 GGCJFBLH_00098 103166 3 Skin 0.04 protein_coding missense_variant MODERATE 521G>A Ser174Asn
M0059289 GGCJFBLH_00099 103436 3 Skin 0.04 protein_coding missense_variant MODERATE 174G>T Lys58Asn
M0059290 GGCJFBLH_00148 150975 3 Skin 0.04 protein_coding synonymous_variant LOW 480A>T Val160Val
M0059291 GGCJFBLH_00148 151035 3 Skin 0.04 protein_coding synonymous_variant LOW 420C>A Ile140Ile
M0059292 GGCJFBLH_00148 151254 3 Skin 0.04 protein_coding synonymous_variant LOW 201C>G Val67Val
M0059293 GGCJFBLH_00148 151381 3 Skin 0.04 protein_coding missense_variant MODERATE 74G>A Arg25Gln
M0059294 GGCJFBLH_00145 151680 3 Skin 0.04 protein_coding upstream_gene_variant MODIFIER -3128G>A None
M0059295 GGCJFBLH_00152 155318 3 Skin 0.04 protein_coding synonymous_variant LOW 492A>G Leu164Leu
M0059296 GGCJFBLH_00156 164388 3 Skin 0.04 protein_coding missense_variant MODERATE 2385G>C Glu795Asp
M0059297 GGCJFBLH_00156 164814 3 Skin 0.04 protein_coding synonymous_variant LOW 2811A>G Glu937Glu
M0059298 GGCJFBLH_00156 164974 3 Skin 0.04 protein_coding missense_variant MODERATE 2971C>T Leu991Phe
M0059299 GGCJFBLH_00156 165309 3 Skin 0.04 protein_coding synonymous_variant LOW 3306C>T Asp1102Asp
M0059300 GGCJFBLH_00158 169665 3 Skin 0.04 protein_coding missense_variant MODERATE 293T>C Ile98Thr
M0059301 GGCJFBLH_00163 175609 3 Skin 0.04 protein_coding missense_variant MODERATE 20G>A Ser7Asn
M0059302 GGCJFBLH_00059 61994 3 Skin 0.04 protein_coding synonymous_variant LOW 81T>G Ala27Ala
M0059303 GGCJFBLH_00059 62048 3 Skin 0.04 protein_coding missense_variant MODERATE 135C>G His45Gln
M0059304 GGCJFBLH_00059 62090 3 Skin 0.04 protein_coding synonymous_variant LOW 177T>C Gly59Gly
M0059305 GGCJFBLH_00059 62172 3 Skin 0.04 protein_coding stop_lost&splice_region_variant HIGH 259T>G Ter87Gluext*?






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
GGCJFBLH_00047 ARO:3003109 100 0 1 491 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
GGCJFBLH_00048 ARO:3003741 100 1.87e-214 1 294 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) antibiotic inactivation
JIOFPFPA_00047 ARO:3003109 100 0 1 491 1.0000 1.0000 macrolide antibiotic msr-type ABC-F protein antibiotic target protection
JIOFPFPA_00048 ARO:3003741 100 1.87e-214 1 294 1.0000 1.0000 macrolide antibiotic macrolide phosphotransferase (MPH) antibiotic inactivation






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
GGCJFBLH_00046 PHI:3165 hopA1 73.6 4.7e-57 1 140 0.9790 0.9113 eudicots leaf spot (celery); leaf spot (eggplant); leaf spot (sweet pepper); wilt rot (muskmelon); stem rot (muskmelon); stem rot (chrysanthemum); leaf spot (soybean) effector (plant avirulence determinant) effector (plant avirulence determinant)
GGCJFBLH_00057 PHI:8812 CopA (ABUW_2707) 80.6 0 1 821 0.9952 0.9976 rodents nosocomial infection copper-translocating P-type ATPase unaffected pathogenicity
JIOFPFPA_00046 PHI:3165 hopA1 73.6 4.7e-57 1 140 0.9790 0.9113 eudicots leaf spot (celery); leaf spot (eggplant); leaf spot (sweet pepper); wilt rot (muskmelon); stem rot (muskmelon); stem rot (chrysanthemum); leaf spot (soybean) effector (plant avirulence determinant) effector (plant avirulence determinant)
JIOFPFPA_00057 PHI:8812 CopA (ABUW_2707) 80.6 0 1 821 0.9952 0.9976 rodents nosocomial infection copper-translocating P-type ATPase 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
GGCJFBLH_00104 QCR87093.1|GH23 100 3.82e-252 1 345 1 1
JIOFPFPA_00104 QCR87093.1|GH23 100 3.82e-252 1 345 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