Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C275
  Reference Plasmid   NC_004845.1
  Reference Plasmid Size   7817
  Reference Plasmid GC Content   0.33
  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
M0151031 HOCBJJED_00006 6557 3 Gut 0.19 protein_coding synonymous_variant LOW 207A>G Ala69Ala
M0151032 HOCBJJED_00007 6730 4 Gut 0.25 protein_coding missense_variant MODERATE 22A>G Lys8Glu
M0151033 HOCBJJED_00008 7395 6 Gut 0.38 protein_coding missense_variant MODERATE 304G>A Val102Ile
M0151034 HOCBJJED_00008 7449 5 Gut 0.31 protein_coding missense_variant MODERATE 358A>G Thr120Ala
M0151035 HOCBJJED_00001 564 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -323G>A None
M0151036 HOCBJJED_00001 588 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -299T>C None
M0151037 HOCBJJED_00001 597 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -290T>C None
M0151038 HOCBJJED_00001 611 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -276G>A None
M0151039 HOCBJJED_00001 619 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -268A>G None
M0151040 HOCBJJED_00001 656 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -231A>C None
M0151041 HOCBJJED_00001 661 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -226A>G None
M0151042 HOCBJJED_00001 694 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -193T>C None
M0151043 HOCBJJED_00001 958 6 Gut 0.38 protein_coding synonymous_variant LOW 72G>A Leu24Leu
M0151044 HOCBJJED_00001 973 5 Gut 0.31 protein_coding synonymous_variant LOW 87G>A Gln29Gln
M0151045 HOCBJJED_00001 985 5 Gut 0.31 protein_coding synonymous_variant LOW 99T>C Ile33Ile
M0151046 HOCBJJED_00001 1001 5 Gut 0.31 protein_coding missense_variant MODERATE 115A>G Lys39Glu
M0151047 HOCBJJED_00001 1076 6 Gut 0.38 protein_coding missense_variant MODERATE 190G>A Glu64Lys
M0151048 HOCBJJED_00001 1081 6 Gut 0.38 protein_coding missense_variant MODERATE 195A>T Lys65Asn
M0151049 HOCBJJED_00001 1083 6 Gut 0.38 protein_coding missense_variant MODERATE 197T>C Leu66Ser
M0151050 HOCBJJED_00001 1107 6 Gut 0.38 protein_coding missense_variant MODERATE 221T>C Ile74Thr
M0151051 HOCBJJED_00001 1141 6 Gut 0.38 protein_coding synonymous_variant LOW 255T>C Thr85Thr
M0151052 HOCBJJED_00001 1264 6 Gut 0.38 protein_coding synonymous_variant LOW 378G>A Leu126Leu
M0151053 HOCBJJED_00001 1267 6 Gut 0.38 protein_coding synonymous_variant LOW 381T>C Phe127Phe
M0151054 HOCBJJED_00001 1333 6 Gut 0.38 protein_coding synonymous_variant LOW 447A>G Lys149Lys
M0151055 HOCBJJED_00001 1334 6 Gut 0.38 protein_coding missense_variant MODERATE 448C>T Arg150Cys
M0151056 HOCBJJED_00001 1381 6 Gut 0.38 protein_coding synonymous_variant LOW 495C>T Val165Val
M0151057 HOCBJJED_00001 1621 6 Gut 0.38 protein_coding synonymous_variant LOW 735C>T Gly245Gly
M0151058 HOCBJJED_00001 1654 6 Gut 0.38 protein_coding synonymous_variant LOW 768A>G Lys256Lys
M0151059 HOCBJJED_00001 1699 5 Gut 0.31 protein_coding synonymous_variant LOW 813C>T Phe271Phe
M0151060 HOCBJJED_00001 1766 5 Gut 0.31 protein_coding missense_variant MODERATE 880G>T Ala294Ser
M0151061 HOCBJJED_00001 1816 6 Gut 0.38 protein_coding synonymous_variant LOW 930A>G Lys310Lys
M0151062 HOCBJJED_00001 1819 6 Gut 0.38 protein_coding synonymous_variant LOW 933G>A Lys311Lys
M0151063 HOCBJJED_00001 2428 7 Gut 0.44 protein_coding synonymous_variant LOW 1542G>A Lys514Lys
M0151064 HOCBJJED_00001 2452 7 Gut 0.44 protein_coding missense_variant MODERATE 1566A>C Lys522Asn
M0151065 HOCBJJED_00001 2486 7 Gut 0.44 protein_coding missense_variant MODERATE 1600T>C Tyr534His
M0151066 HOCBJJED_00002 2877 8 Gut 0.50 protein_coding missense_variant MODERATE 370G>A Ala124Thr
M0151067 HOCBJJED_00002 2879 7 Gut 0.44 protein_coding synonymous_variant LOW 372C>T Ala124Ala
M0151068 HOCBJJED_00002 3073 10 Gut 0.63 protein_coding missense_variant MODERATE 566T>C Leu189Pro
M0151069 HOCBJJED_00006 3221 7 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -3130G>A None
M0151070 HOCBJJED_00006 3224 7 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -3127T>A None
M0151071 HOCBJJED_00006 3227 7 Gut 0.44 protein_coding upstream_gene_variant MODIFIER -3124T>C None
M0151072 HOCBJJED_00006 3250 8 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -3101G>T None
M0151073 HOCBJJED_00006 3251 8 Gut 0.50 protein_coding upstream_gene_variant MODIFIER -3100A>T None
M0151074 HOCBJJED_00006 3284 4 Gut 0.25 protein_coding upstream_gene_variant MODIFIER -3067C>T None
M0151075 HOCBJJED_00003 3453 8 Gut 0.50 protein_coding synonymous_variant LOW 1056A>C Gly352Gly
M0151076 HOCBJJED_00003 3623 6 Gut 0.38 protein_coding missense_variant MODERATE 886A>G Met296Val
M0151077 HOCBJJED_00003 3736 8 Gut 0.50 protein_coding missense_variant MODERATE 773T>C Leu258Ser
M0151078 HOCBJJED_00003 4041 8 Gut 0.50 protein_coding synonymous_variant LOW 468A>G Leu156Leu
M0151079 HOCBJJED_00003 4220 8 Gut 0.50 protein_coding missense_variant MODERATE 289G>A Gly97Ser
M0151080 HOCBJJED_00004 4648 9 Gut 0.56 protein_coding missense_variant MODERATE 898C>T Pro300Ser
M0151081 HOCBJJED_00004 4760 7 Gut 0.44 protein_coding synonymous_variant LOW 786C>T Gly262Gly
M0151082 HOCBJJED_00004 5313 9 Gut 0.56 protein_coding missense_variant MODERATE 233G>A Gly78Glu
M0151083 HOCBJJED_00004 5322 5 Gut 0.31 protein_coding missense_variant MODERATE 224C>A Pro75Gln
M0151084 HOCBJJED_00004 5363 6 Gut 0.38 protein_coding synonymous_variant LOW 183G>A Lys61Lys
M0151085 HOCBJJED_00004 5368 6 Gut 0.38 protein_coding missense_variant MODERATE 178G>A Asp60Asn
M0151086 HOCBJJED_00004 5387 8 Gut 0.50 protein_coding synonymous_variant LOW 159G>A Lys53Lys
M0151087 HOCBJJED_00004 5500 9 Gut 0.56 protein_coding missense_variant MODERATE 46G>A Val16Ile
M0151088 HOCBJJED_00003 5756 9 Gut 0.56 protein_coding upstream_gene_variant MODIFIER -1248A>G None
M0151089 HOCBJJED_00003 5816 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -1308T>C None
M0151090 HOCBJJED_00003 5865 6 Gut 0.38 protein_coding upstream_gene_variant MODIFIER -1357A>G None
M0151091 HOCBJJED_00002 2870 3 Gut 0.19 protein_coding synonymous_variant LOW 363C>T Gly121Gly
M0151092 HOCBJJED_00002 2891 3 Gut 0.19 protein_coding synonymous_variant LOW 384C>T Pro128Pro
M0151093 HOCBJJED_00002 2902 3 Gut 0.19 protein_coding missense_variant MODERATE 395A>G Glu132Gly
M0151094 HOCBJJED_00002 2993 3 Gut 0.19 protein_coding synonymous_variant LOW 486G>A Lys162Lys
M0151095 HOCBJJED_00004 4969 3 Gut 0.19 protein_coding missense_variant MODERATE 577T>C Tyr193His
M0151096 HOCBJJED_00004 5003 3 Gut 0.19 protein_coding synonymous_variant LOW 543T>C Ala181Ala
M0151097 HOCBJJED_00002 3134 3 Gut 0.19 protein_coding synonymous_variant LOW 627A>G Lys209Lys






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