Annotation Categories of the Plasmid Cluster







Summary of the plasmid cluster

Basic Information about the Plasmid Cluster

  Cluster Information   Plasmid Cluster ID   C1347
  Reference Plasmid   NZ_LR135221.1
  Reference Plasmid Size   114941
  Reference Plasmid GC Content   0.36
  Reference Plasmid Mobility Type   conjugative





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
M0206935 MGGCBOKN_00005 3510 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -62T>A None
M0206936 MGGCBOKN_00027 27518 3 Gut 0.30 protein_coding synonymous_variant LOW 336T>C Tyr112Tyr
M0206937 MGGCBOKN_00027 27536 4 Gut 0.40 protein_coding synonymous_variant LOW 354G>A Thr118Thr
M0206938 MGGCBOKN_00027 27563 4 Gut 0.40 protein_coding synonymous_variant LOW 381T>C Asn127Asn
M0206939 MGGCBOKN_00027 27578 4 Gut 0.40 protein_coding synonymous_variant LOW 396G>T Thr132Thr
M0206940 MGGCBOKN_00027 27590 4 Gut 0.40 protein_coding synonymous_variant LOW 408G>T Gly136Gly
M0206941 MGGCBOKN_00027 27614 4 Gut 0.40 protein_coding synonymous_variant LOW 432G>A Ala144Ala
M0206942 MGGCBOKN_00027 27617 4 Gut 0.40 protein_coding synonymous_variant LOW 435T>A Arg145Arg
M0206943 MGGCBOKN_00027 28133 4 Gut 0.40 protein_coding synonymous_variant LOW 951T>C Gly317Gly
M0206944 MGGCBOKN_00027 28373 3 Gut 0.30 protein_coding synonymous_variant LOW 1191C>T Ser397Ser
M0206945 MGGCBOKN_00028 28412 4 Gut 0.40 protein_coding synonymous_variant LOW 15C>G Thr5Thr
M0206946 MGGCBOKN_00028 28481 4 Gut 0.40 protein_coding synonymous_variant LOW 84T>G Leu28Leu
M0206947 MGGCBOKN_00028 28487 4 Gut 0.40 protein_coding synonymous_variant LOW 90A>G Glu30Glu
M0206948 MGGCBOKN_00028 28495 3 Gut 0.30 protein_coding missense_variant MODERATE 98A>C Glu33Ala
M0206949 MGGCBOKN_00028 28496 4 Gut 0.40 protein_coding synonymous_variant LOW 99G>A Glu33Glu
M0206950 MGGCBOKN_00028 28497 3 Gut 0.30 protein_coding missense_variant MODERATE 100A>G Thr34Ala
M0206951 MGGCBOKN_00028 28541 4 Gut 0.40 protein_coding missense_variant MODERATE 144T>G Asp48Glu
M0206952 MGGCBOKN_00028 28559 4 Gut 0.40 protein_coding synonymous_variant LOW 162T>C Ser54Ser
M0206953 MGGCBOKN_00028 28565 3 Gut 0.30 protein_coding synonymous_variant LOW 168A>G Glu56Glu
M0206954 MGGCBOKN_00028 28580 4 Gut 0.40 protein_coding synonymous_variant LOW 183T>C Ile61Ile
M0206955 MGGCBOKN_00028 28797 3 Gut 0.30 protein_coding missense_variant MODERATE 400G>A Val134Ile
M0206956 MGGCBOKN_00028 28798 4 Gut 0.40 protein_coding missense_variant MODERATE 401T>C Val134Ala
M0206957 MGGCBOKN_00028 28838 4 Gut 0.40 protein_coding synonymous_variant LOW 441T>C Ser147Ser
M0206958 MGGCBOKN_00028 28934 3 Gut 0.30 protein_coding synonymous_variant LOW 537T>G Pro179Pro
M0206959 MGGCBOKN_00028 28988 3 Gut 0.30 protein_coding missense_variant MODERATE 591A>T Glu197Asp
M0206960 MGGCBOKN_00028 29017 3 Gut 0.30 protein_coding missense_variant MODERATE 620C>T Thr207Ile
M0206961 MGGCBOKN_00029 29072 3 Gut 0.30 protein_coding missense_variant MODERATE 20C>A Ala7Glu
M0206962 MGGCBOKN_00029 29085 4 Gut 0.40 protein_coding synonymous_variant LOW 33T>C Phe11Phe
M0206963 MGGCBOKN_00029 29107 3 Gut 0.30 protein_coding synonymous_variant LOW 55A>C Arg19Arg
M0206964 MGGCBOKN_00029 29108 3 Gut 0.30 protein_coding missense_variant MODERATE 56G>A Arg19Lys
M0206965 MGGCBOKN_00029 29118 4 Gut 0.40 protein_coding synonymous_variant LOW 66G>A Gly22Gly
M0206966 MGGCBOKN_00029 29163 4 Gut 0.40 protein_coding synonymous_variant LOW 111C>T Tyr37Tyr
M0206967 MGGCBOKN_00029 29166 4 Gut 0.40 protein_coding synonymous_variant LOW 114A>G Thr38Thr
M0206968 MGGCBOKN_00029 29167 3 Gut 0.30 protein_coding missense_variant MODERATE 115C>A His39Asn
M0206969 MGGCBOKN_00029 29170 3 Gut 0.30 protein_coding missense_variant MODERATE 118A>C Lys40Gln
M0206970 MGGCBOKN_00029 29172 4 Gut 0.40 protein_coding synonymous_variant LOW 120A>G Lys40Lys
M0206971 MGGCBOKN_00029 29181 3 Gut 0.30 protein_coding synonymous_variant LOW 129C>T Asp43Asp
M0206972 MGGCBOKN_00029 29193 4 Gut 0.40 protein_coding synonymous_variant LOW 141A>G Glu47Glu
M0206973 MGGCBOKN_00029 29202 3 Gut 0.30 protein_coding synonymous_variant LOW 150G>A Thr50Thr
M0206974 MGGCBOKN_00029 29281 3 Gut 0.30 protein_coding missense_variant MODERATE 229G>T Ala77Ser
M0206975 MGGCBOKN_00029 29301 4 Gut 0.40 protein_coding synonymous_variant LOW 249G>A Gln83Gln
M0206976 MGGCBOKN_00029 29319 4 Gut 0.40 protein_coding synonymous_variant LOW 267A>G Leu89Leu
M0206977 MGGCBOKN_00029 29367 3 Gut 0.30 protein_coding synonymous_variant LOW 315T>C Tyr105Tyr
M0206978 MGGCBOKN_00029 29377 3 Gut 0.30 protein_coding missense_variant MODERATE 325A>C Lys109Gln
M0206979 MGGCBOKN_00029 29378 3 Gut 0.30 protein_coding missense_variant MODERATE 326A>G Lys109Arg
M0206980 MGGCBOKN_00029 29414 4 Gut 0.40 protein_coding missense_variant MODERATE 362T>C Val121Ala
M0206981 MGGCBOKN_00029 29448 3 Gut 0.30 protein_coding synonymous_variant LOW 396T>C Ile132Ile
M0206982 MGGCBOKN_00029 29451 3 Gut 0.30 protein_coding synonymous_variant LOW 399T>C Ala133Ala
M0206983 MGGCBOKN_00029 29457 3 Gut 0.30 protein_coding synonymous_variant LOW 405A>T Arg135Arg
M0206984 MGGCBOKN_00029 29463 4 Gut 0.40 protein_coding synonymous_variant LOW 411T>C Thr137Thr
M0206985 MGGCBOKN_00029 29490 3 Gut 0.30 protein_coding synonymous_variant LOW 438G>A Lys146Lys
M0206986 MGGCBOKN_00029 29508 3 Gut 0.30 protein_coding synonymous_variant LOW 456G>A Pro152Pro
M0206987 MGGCBOKN_00029 29522 3 Gut 0.30 protein_coding missense_variant MODERATE 470T>A Phe157Tyr
M0206988 MGGCBOKN_00029 29526 3 Gut 0.30 protein_coding synonymous_variant LOW 474T>C Tyr158Tyr
M0206989 MGGCBOKN_00029 29527 3 Gut 0.30 protein_coding missense_variant MODERATE 475A>G Ile159Val
M0206990 MGGCBOKN_00029 29529 3 Gut 0.30 protein_coding missense_variant MODERATE 477T>G Ile159Met
M0206991 MGGCBOKN_00029 29544 3 Gut 0.30 protein_coding synonymous_variant LOW 492C>T Val164Val
M0206992 MGGCBOKN_00029 29553 3 Gut 0.30 protein_coding missense_variant MODERATE 501C>A His167Gln
M0206993 MGGCBOKN_00029 29562 3 Gut 0.30 protein_coding synonymous_variant LOW 510C>T Asp170Asp
M0206994 MGGCBOKN_00029 29580 3 Gut 0.30 protein_coding synonymous_variant LOW 528T>C His176His
M0206995 MGGCBOKN_00029 29628 3 Gut 0.30 protein_coding synonymous_variant LOW 576A>T Ala192Ala
M0206996 MGGCBOKN_00029 29640 3 Gut 0.30 protein_coding missense_variant MODERATE 588T>G Ile196Met
M0206997 MGGCBOKN_00029 29646 4 Gut 0.40 protein_coding synonymous_variant LOW 594C>T Ser198Ser
M0206998 MGGCBOKN_00029 29688 3 Gut 0.30 protein_coding synonymous_variant LOW 636A>G Lys212Lys
M0206999 MGGCBOKN_00029 29697 3 Gut 0.30 protein_coding missense_variant MODERATE 645T>G Asp215Glu
M0207000 MGGCBOKN_00029 29721 4 Gut 0.40 protein_coding missense_variant MODERATE 669A>T Glu223Asp
M0207001 MGGCBOKN_00029 29742 3 Gut 0.30 protein_coding synonymous_variant LOW 690T>C Asn230Asn
M0207002 MGGCBOKN_00029 29754 3 Gut 0.30 protein_coding synonymous_variant LOW 702T>C Ser234Ser
M0207003 MGGCBOKN_00029 29788 3 Gut 0.30 protein_coding missense_variant MODERATE 736A>C Met246Leu
M0207004 MGGCBOKN_00029 29807 4 Gut 0.40 protein_coding missense_variant MODERATE 755G>T Ser252Ile
M0207005 MGGCBOKN_00029 29853 3 Gut 0.30 protein_coding missense_variant MODERATE 801T>G Asn267Lys
M0207006 MGGCBOKN_00030 29863 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -19A>G None
M0207007 MGGCBOKN_00030 29865 4 Gut 0.40 protein_coding upstream_gene_variant MODIFIER -17T>C None
M0207008 MGGCBOKN_00030 29875 4 Gut 0.40 protein_coding upstream_gene_variant MODIFIER -7A>G None
M0207009 MGGCBOKN_00030 29891 3 Gut 0.30 protein_coding missense_variant MODERATE 10G>A Ala4Thr
M0207010 MGGCBOKN_00030 29893 3 Gut 0.30 protein_coding synonymous_variant LOW 12G>A Ala4Ala
M0207011 MGGCBOKN_00030 29901 3 Gut 0.30 protein_coding missense_variant MODERATE 20T>C Val7Ala
M0207012 MGGCBOKN_00030 29902 3 Gut 0.30 protein_coding synonymous_variant LOW 21C>T Val7Val
M0207013 MGGCBOKN_00030 29904 3 Gut 0.30 protein_coding missense_variant MODERATE 23G>A Gly8Asp
M0207014 MGGCBOKN_00030 29979 3 Gut 0.30 protein_coding missense_variant MODERATE 98A>G Gln33Arg
M0207015 MGGCBOKN_00031 30025 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -107A>C None
M0207016 MGGCBOKN_00031 30032 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -100G>A None
M0207017 MGGCBOKN_00031 30042 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -90C>T None
M0207018 MGGCBOKN_00031 30081 3 Gut 0.30 protein_coding upstream_gene_variant MODIFIER -51T>A None






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
MGGCBOKN_00009 VFG042989 PilA-type pili (PGS1, pilin gene clusters 1) 99.6 2.7e-125 1 223 1.0 1 Adherence putative housekeeping sortase prediction
MGGCBOKN_00010 VFG042988 PilA-type pili (PGS1, pilin gene clusters 1) 95.9 0 1 658 1.0 1 Adherence PilA prediction
MGGCBOKN_00011 VFG042987 PilA-type pili (PGS1, pilin gene clusters 1) 99.2 1.9e-138 1 250 1.0 1 Adherence putative pilus-dedicated sortase prediction
MGGCBOKN_00012 VFG042986 PilA-type pili (PGS1, pilin gene clusters 1) 98.4 1.1e-130 1 253 1.0 1.008 Adherence cell wall-associated LPXTG-like protein prediction
MGGCBOKN_00013 VFG042985 PilA-type pili (PGS1, pilin gene clusters 1) 96.5 2.4e-37 1 86 1.0 1 Adherence hypothetical hydrophobic peptide prediction
MGGCBOKN_00014 VFG042984 PilA-type pili (PGS1, pilin gene clusters 1) 99 0 1 695 0.9986 0.9986 Adherence minor pilin subunit prediction







        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
MGGCBOKN_00056 ARO:3000186 94.5 0 1 639 1.0000 1.0000 tetracycline antibiotic tetracycline-resistant ribosomal protection protein antibiotic target protection
MGGCBOKN_00057 ARO:3000179 99.8 1.21000135126042e-318 1 458 1.0000 1.0000 tetracycline antibiotic major facilitator superfamily (MFS) antibiotic efflux pump antibiotic efflux
MGGCBOKN_00066 ARO:3002626 100 9.66e-218 1 287 1.0000 1.0000 aminoglycoside antibiotic ANT(6) antibiotic inactivation
MGGCBOKN_00076 ARO:3004455 95.3 6.7e-160 1 215 0.9954 0.9954 phenicol antibiotic chloramphenicol acetyltransferase (CAT) antibiotic inactivation
MGGCBOKN_00090 ARO:3000595 98.8 2.69e-173 1 244 1.0000 1.0000 macrolide antibiotic Erm 23S ribosomal RNA methyltransferase antibiotic target alteration






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
MGGCBOKN_00045 PHI:5205 HMPREF0351_10118 (WxL locusC) 93.1 3.3e-214 1 392 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence
MGGCBOKN_00125 PHI:5205 HMPREF0351_10118 (WxL locusC) 100 1e-226 1 392 1.0000 1.0000 rodents endocarditis involved in bile salt stress and endocarditis pathogenesis reduced virulence






        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
MGGCBOKN_00027 AFC64972.1|GH73 100 3.75e-284 1 399 1 1
MGGCBOKN_00054 ALH97490.1|GH23 100 2.1e-243 1 333 1 1
MGGCBOKN_00064 CCO11850.2|GH4 79.8 3.76e-121 222 439 0.4966 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
MGGCBOKN_00057 2.A.1.3.16 81.8 1.6e-207 1 456 0.9956 0.9956 2 Electrochemical Potential-driven Transporters 2.A Porters (uniporters, symporters, antiporters) 2.A.1 The Major Facilitator Superfamily (MFS)