Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1260
  Reference Plasmid   NZ_CP145143.1
  Reference Plasmid Size   47626
  Reference Plasmid GC Content   0.50
  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
M0204954 MBNJAGEN_00055 39981 5 Gut 0.45 protein_coding synonymous_variant LOW 429T>C Asp143Asp
M0204955 MBNJAGEN_00056 40306 5 Gut 0.45 protein_coding synonymous_variant LOW 90T>C Ser30Ser
M0204956 MBNJAGEN_00056 40411 5 Gut 0.45 protein_coding synonymous_variant LOW 195G>A Glu65Glu
M0204957 MBNJAGEN_00056 40459 5 Gut 0.45 protein_coding synonymous_variant LOW 243T>C Ser81Ser
M0204958 MBNJAGEN_00056 40461 5 Gut 0.45 protein_coding missense_variant MODERATE 245A>G Gln82Arg
M0204959 MBNJAGEN_00056 40528 5 Gut 0.45 protein_coding synonymous_variant LOW 312C>A Arg104Arg
M0204960 MBNJAGEN_00056 40948 6 Gut 0.55 protein_coding synonymous_variant LOW 732A>G Glu244Glu
M0204961 MBNJAGEN_00056 41124 6 Gut 0.55 protein_coding missense_variant MODERATE 908T>C Val303Ala
M0204962 MBNJAGEN_00056 41131 6 Gut 0.55 protein_coding synonymous_variant LOW 915G>C Ser305Ser
M0204963 MBNJAGEN_00056 41176 5 Gut 0.45 protein_coding synonymous_variant LOW 960C>T Ala320Ala
M0204964 MBNJAGEN_00056 41178 5 Gut 0.45 protein_coding missense_variant MODERATE 962C>G Thr321Ser
M0204965 MBNJAGEN_00056 43015 6 Gut 0.55 protein_coding synonymous_variant LOW 2799A>T Ala933Ala
M0204966 MBNJAGEN_00056 43031 5 Gut 0.45 protein_coding missense_variant MODERATE 2815G>A Ala939Thr
M0204967 MBNJAGEN_00056 43033 6 Gut 0.55 protein_coding synonymous_variant LOW 2817G>C Ala939Ala
M0204968 MBNJAGEN_00056 43141 5 Gut 0.45 protein_coding synonymous_variant LOW 2925C>T His975His
M0204969 MBNJAGEN_00056 43477 5 Gut 0.45 protein_coding synonymous_variant LOW 3261G>T Gly1087Gly
M0204970 MBNJAGEN_00058 44477 5 Gut 0.45 protein_coding upstream_gene_variant MODIFIER -1C>A None
M0204971 MBNJAGEN_00058 44482 5 Gut 0.45 protein_coding missense_variant MODERATE 5A>C Asp2Ala
M0204972 MBNJAGEN_00058 44483 5 Gut 0.45 protein_coding missense_variant MODERATE 6T>A Asp2Glu
M0204973 MBNJAGEN_00058 44515 5 Gut 0.45 protein_coding missense_variant MODERATE 38C>A Thr13Lys
M0204974 MBNJAGEN_00059 47514 6 Gut 0.55 protein_coding upstream_gene_variant MODIFIER -1463A>G None
M0204975 MBNJAGEN_00059 47573 6 Gut 0.55 protein_coding upstream_gene_variant MODIFIER -1522T>C None
M0204976 MBNJAGEN_00001 1652 4 Gut 0.36 protein_coding synonymous_variant LOW 1512G>A Leu504Leu
M0204977 MBNJAGEN_00024 14943 5 Gut 0.45 protein_coding upstream_gene_variant MODIFIER -364A>G None
M0204978 MBNJAGEN_00035 20767 5 Gut 0.45 protein_coding upstream_gene_variant MODIFIER -10A>G None
M0204979 MBNJAGEN_00035 20845 4 Gut 0.36 protein_coding synonymous_variant LOW 69A>G Gln23Gln
M0204980 MBNJAGEN_00035 20848 4 Gut 0.36 protein_coding synonymous_variant LOW 72G>A Glu24Glu
M0204981 MBNJAGEN_00036 21356 4 Gut 0.36 protein_coding synonymous_variant LOW 60T>C Arg20Arg
M0204982 MBNJAGEN_00036 21357 4 Gut 0.36 protein_coding missense_variant MODERATE 61G>T Ala21Ser
M0204983 MBNJAGEN_00036 21359 4 Gut 0.36 protein_coding synonymous_variant LOW 63C>A Ala21Ala
M0204984 MBNJAGEN_00036 22259 5 Gut 0.45 protein_coding synonymous_variant LOW 963C>T Ser321Ser
M0204985 MBNJAGEN_00036 22280 5 Gut 0.45 protein_coding synonymous_variant LOW 984G>A Thr328Thr
M0204986 MBNJAGEN_00036 22340 5 Gut 0.45 protein_coding synonymous_variant LOW 1044A>G Gly348Gly
M0204987 MBNJAGEN_00036 22388 5 Gut 0.45 protein_coding synonymous_variant LOW 1092A>G Thr364Thr
M0204988 MBNJAGEN_00036 22394 5 Gut 0.45 protein_coding synonymous_variant LOW 1098A>G Glu366Glu
M0204989 MBNJAGEN_00036 22406 5 Gut 0.45 protein_coding synonymous_variant LOW 1110T>C Gly370Gly
M0204990 MBNJAGEN_00036 22436 5 Gut 0.45 protein_coding synonymous_variant LOW 1140G>A Glu380Glu
M0204991 MBNJAGEN_00036 22487 5 Gut 0.45 protein_coding synonymous_variant LOW 1191T>C Thr397Thr
M0204992 MBNJAGEN_00036 22511 5 Gut 0.45 protein_coding synonymous_variant LOW 1215T>C Asp405Asp
M0204993 MBNJAGEN_00036 22598 5 Gut 0.45 protein_coding synonymous_variant LOW 1302T>C Asp434Asp
M0204994 MBNJAGEN_00036 22601 5 Gut 0.45 protein_coding synonymous_variant LOW 1305A>G Glu435Glu
M0204995 MBNJAGEN_00036 22610 5 Gut 0.45 protein_coding synonymous_variant LOW 1314G>A Leu438Leu
M0204996 MBNJAGEN_00036 22615 5 Gut 0.45 protein_coding missense_variant MODERATE 1319A>G His440Arg
M0204997 MBNJAGEN_00036 22643 5 Gut 0.45 protein_coding synonymous_variant LOW 1347T>C Tyr449Tyr
M0204998 MBNJAGEN_00039 25126 4 Gut 0.36 protein_coding synonymous_variant LOW 123C>T Ser41Ser
M0204999 MBNJAGEN_00039 25141 4 Gut 0.36 protein_coding synonymous_variant LOW 138G>A Ala46Ala
M0205000 MBNJAGEN_00039 25181 4 Gut 0.36 protein_coding missense_variant MODERATE 178A>G Thr60Ala
M0205001 MBNJAGEN_00039 25197 4 Gut 0.36 protein_coding missense_variant MODERATE 194T>G Val65Gly
M0205002 MBNJAGEN_00039 25264 4 Gut 0.36 protein_coding synonymous_variant LOW 261T>G Val87Val
M0205003 MBNJAGEN_00039 25270 4 Gut 0.36 protein_coding synonymous_variant LOW 267C>T Gly89Gly
M0205004 MBNJAGEN_00039 25288 4 Gut 0.36 protein_coding synonymous_variant LOW 285A>G Thr95Thr
M0205005 MBNJAGEN_00039 25312 4 Gut 0.36 protein_coding synonymous_variant LOW 309G>A Gly103Gly
M0205006 MBNJAGEN_00039 25339 4 Gut 0.36 protein_coding synonymous_variant LOW 336C>T Ala112Ala
M0205007 MBNJAGEN_00039 25363 4 Gut 0.36 protein_coding synonymous_variant LOW 360C>T Asp120Asp
M0205008 MBNJAGEN_00039 25399 4 Gut 0.36 protein_coding synonymous_variant LOW 396G>A Thr132Thr
M0205009 MBNJAGEN_00039 25402 4 Gut 0.36 protein_coding synonymous_variant LOW 399C>G Pro133Pro
M0205010 MBNJAGEN_00039 25408 4 Gut 0.36 protein_coding synonymous_variant LOW 405A>G Gly135Gly
M0205011 MBNJAGEN_00039 25417 4 Gut 0.36 protein_coding synonymous_variant LOW 414A>G Ala138Ala
M0205012 MBNJAGEN_00039 25420 4 Gut 0.36 protein_coding synonymous_variant LOW 417G>A Gly139Gly
M0205013 MBNJAGEN_00039 25432 4 Gut 0.36 protein_coding synonymous_variant LOW 429C>T Cys143Cys
M0205014 MBNJAGEN_00039 25511 4 Gut 0.36 protein_coding synonymous_variant LOW 508T>C Leu170Leu
M0205015 MBNJAGEN_00039 25535 4 Gut 0.36 protein_coding missense_variant MODERATE 532C>T Arg178Cys






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
MBNJAGEN_00030 AML08192.1|GH24 100 7.66e-117 1 165 1 1
MBNJAGEN_00054 BCA44326.1|GH24 93.6 0 3 1132 0.9982 0.9448





        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
MBNJAGEN_00031 1.M.1.1.4 90.3 6e-68 1 144 0.9931 0.9931 1 Channels/Pores 1.M Membrane Fusion-mediating Spanins 1.M.1 The Rz/Rz1 Spanin1 (Rz(1)) Family
MBNJAGEN_00038 1.W.5.1.1 98.5 2.60000000000001e-310 1 533 1.0000 1.0000 1 Channels/Pores 1.W Phage Portal Protein Subclass 1.W.5 The (Lambda) Phage Portal Protein 5 (PPP5) Family
MBNJAGEN_00054 1.E.1.1.7 70.6 1.7e-263 488 1131 0.5689 0.9403 1 Channels/Pores 1.E Holins 1.E.1 The P21 Holin S (P21 Holin) Family
MBNJAGEN_00055 1.B.6.2.20 96 5.6e-109 1 199 1.0000 1.0000 1 Channels/Pores 1.B β-Barrel Porins 1.B.6 The OmpA-OmpF Porin (OOP) Family