Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
No hits above weak threshold.
Weak hits (7):
LexA
Description: Repressor of DNA damage response Score: 20.50 out of 29.65
Confidence: weak
NrtR
Description: NAD synthesis repressor Score: 19.15 out of 35.63
Confidence: weak
LexA
Description: Repressor of DNA damage response Score: 19.83 out of 29.65
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor Score: 19.42 out of 27.04
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 20.24 out of 28.19
Confidence: weak
LexA
Description: Repressor of DNA damage response Score: 19.60 out of 29.65
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 19.98 out of 27.18
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 1, location 86636 - 139654:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
SCO0126: mal
PKS_AT (611..907): mal
ATSignature: Malonyl-CoA
Top 3 matches:
Malonyl-CoA: 79.2%
inactive: 70.8%
2-Rhyd-Malonyl-CoA: 58.3%
minowa: Malonyl-CoA
Prediction, score:
Malonyl-CoA: 81.1
Methoxymalonyl-CoA: 30.9
Methylmalonyl-CoA: 25.6
inactive: 23.2
Propionyl-CoA: 13.8
2-Methylbutyryl-CoA: 12.2
fatty_acid: 7.9
Isobutyryl-CoA: 1.8
CHC-CoA: 1.1
trans-1,2-CPDA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
Ethylmalonyl-CoA: -3.2
SCO0127: mxmal
PKS_AT (968..1194): mxmal
ATSignature: (unknown)
No matches above 50%
minowa: Methoxymalonyl-CoA
Prediction, score:
Methoxymalonyl-CoA: 29.2
Methylmalonyl-CoA: 26.5
Malonyl-CoA: 22.1
Ethylmalonyl-CoA: 13.7
trans-1,2-CPDA: 0.0
inactive: 0.0
fatty_acid: 0.0
Isobutyryl-CoA: 0.0
CHC-CoA: 0.0
Benzoyl-CoA: 0.0
Acetyl-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
Propionyl-CoA: -0.2
2-Methylbutyryl-CoA: -4.3
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
OsdR
Description: Development and stress management regulator Score: 28.31 out of 30.12
Confidence: strong
OsdR
Description: Development and stress management regulator Score: 26.90 out of 30.12
Confidence: medium
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
lanthipeptide-class-i: ((LANC_like and (Lant_dehydr_N or Lant_dehydr_C)) and not (YcaO or TIGR03604))
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
Lanthipeptides
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Lanthipeptide predictions
Shows the possible core peptides for each biosynthetic enzyme. Includes CompaRiPPson results for any available databases, with a detailed explanation here.
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
OsdR
Description: Development and stress management regulator Score: 25.84 out of 30.12
Confidence: medium
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production Score: 17.11 out of 19.52
Confidence: medium
Additional weak hits (2):
CelR
Description: Cellobiose uptake repressor Score: 22.20 out of 30.11
Confidence: weak
CelR
Description: Cellobiose uptake repressor Score: 22.04 out of 30.11
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
Lanthipeptides
RREFinder
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of lanthionine bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL))) NRPS: cds(Condensation and (AMP-binding or A-OX))
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
ZuR
Description: Zinc-responsive repressor Score: 26.21 out of 28.19
Confidence: strong
DmdR1
Description: Iron(II)-dependent repressor Score: 35.53 out of 36.53
Confidence: strong
DmdR1
Description: Iron(II)-dependent repressor Score: 34.36 out of 36.53
Confidence: strong
DmdR1
Description: Iron(II)-dependent repressor Score: 29.30 out of 36.53
Confidence: medium
DmdR1
Description: Iron(II)-dependent repressor Score: 30.02 out of 36.53
Confidence: medium
OsdR
Description: Development and stress management regulator Score: 27.18 out of 30.12
Confidence: medium
OsdR
Description: Development and stress management regulator Score: 26.66 out of 30.12
Confidence: medium
OsdR
Description: Development and stress management regulator Score: 25.09 out of 30.12
Confidence: medium
Additional weak hits (7):
DasR
Description: N-acetylglucosamine dependent repressor Score: 21.02 out of 27.04
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor Score: 23.39 out of 36.53
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor Score: 22.24 out of 36.53
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor Score: 18.59 out of 22.40
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor Score: 18.59 out of 22.40
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor Score: 25.39 out of 36.53
Confidence: weak
LexA
Description: Repressor of DNA damage response Score: 20.81 out of 29.65
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 4, location 493988 - 552325:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NC_003888.3 - Region 6 - T3PKS
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
CelR
Description: Cellobiose uptake repressor Score: 28.65 out of 30.11
Confidence: strong
CelR
Description: Cellobiose uptake repressor Score: 30.11 out of 30.11
Confidence: strong
CelR
Description: Cellobiose uptake repressor Score: 25.56 out of 30.11
Confidence: medium
CelR
Description: Cellobiose uptake repressor Score: 25.19 out of 30.11
Confidence: medium
Additional weak hits (4):
CelR
Description: Cellobiose uptake repressor Score: 22.98 out of 30.11
Confidence: weak
CelR
Description: Cellobiose uptake repressor Score: 22.98 out of 30.11
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor Score: 20.03 out of 27.04
Confidence: weak
BldD
Description: Development and antibiotic global regulator Score: 18.65 out of 23.43
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS substrates
TFBS Finder
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production Score: 17.62 out of 19.52
Confidence: medium
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Two-component system AfsQ1-Q2, activator of antibiotic production
NC_003888.3 - Region 8 - melanin
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
Pfam domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
NC_003888.3 - Region 9 - NI-siderophore
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
DmdR1
Description: Iron(II)-dependent repressor Score: 36.53 out of 36.53
Confidence: strong
DmdR1
Description: Iron(II)-dependent repressor Score: 30.94 out of 36.53
Confidence: medium
CelR
Description: Cellobiose uptake repressor Score: 28.65 out of 30.11
Confidence: strong
CelR
Description: Cellobiose uptake repressor Score: 28.65 out of 30.11
Confidence: strong
CelR
Description: Cellobiose uptake repressor Score: 28.62 out of 30.11
Confidence: strong
BldD
Description: Development and antibiotic global regulator Score: 20.26 out of 23.43
Confidence: medium
AfsR
Description: Pleiotropic regulatory for antibiotic production Score: 19.28 out of 23.05
Confidence: medium
CelR
Description: Cellobiose uptake repressor Score: 26.66 out of 30.11
Confidence: medium
Additional weak hits (1):
CatR
Description: H2O2-responsive repressor Score: 17.99 out of 25.31
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
No hits above weak threshold.
Weak hits (4):
DmdR1
Description: Iron(II)-dependent repressor Score: 22.38 out of 36.53
Confidence: weak
NuR
Description: Nickel-responsive regulator Score: 20.72 out of 30.98
Confidence: weak
NrtR
Description: NAD synthesis repressor Score: 18.46 out of 35.63
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 21.36 out of 27.18
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 10, location 3523334 - 3603988:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS substrates
Type II PKS
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
Type II PKS gene cluster prediction details
Predictions of starter units, elongations, product classes, and potential molecular weights for type II PKS clusters. More detailed information is available here.
Cluster section:
5494800 to 5567424
Starter unit(s):
acetyl-CoA (Score: 0.0; E-value: 0)
Malonyl elongations:
7 (Score: 743.5; E-value: 1.2e-226)
Product class(es):
benzoisochromanequinone
Product molecular weight(s):
acetyl-CoA_7: 342 Da
SCO5072
KR
(Score: 159.4; E-value: 3.1e-49)
SCO5079
DIMER
(Score: 426.8; E-value: 8.7e-131)
SCO5080
OXY
(Score: 44.7; E-value: 2.1e-14)
SCO5086
KR
C9
(Score: 438.4; E-value: 1.9e-134)
SCO5087
KS
(Score: 768.6; E-value: 3.5e-234)
SCO5088
CLF
7
(Score: 743.5; E-value: 1.2e-226)
SCO5089
ACP
(Score: 114.2; E-value: 5e-36)
SCO5090
CYC
C7-C12
(Score: 404.0; E-value: 7.8e-124)
SCO5091
CYC
C5-C14
(Score: 467.3; E-value: 4.4e-143)
SCO5094
MET
(Score: 32.7; E-value: 9.8e-11)
SCO5097
KR
(Score: 129.8; E-value: 3.3e-40)
NC_003888.3 - Region 12 - terpene
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 25.12 out of 27.18
Confidence: strong
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 24.21 out of 27.18
Confidence: medium
DasR
Description: N-acetylglucosamine dependent repressor Score: 22.33 out of 27.04
Confidence: medium
DasR
Description: N-acetylglucosamine dependent repressor Score: 23.22 out of 27.04
Confidence: medium
Additional weak hits (1):
ArgR
Description: Regulator of arginine biosynthesis genes Score: 17.46 out of 20.01
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
HypR
Description: L-hydroxyproline utilization repressor Score: 22.05 out of 22.40
Confidence: strong
AfsR
Description: Pleiotropic regulatory for antibiotic production Score: 19.28 out of 23.05
Confidence: medium
BldD
Description: Development and antibiotic global regulator Score: 21.27 out of 23.43
Confidence: medium
AbrC3
Description: Antibiotic production activator Score: 18.16 out of 18.16
Confidence: strong
Additional weak hits (3):
HypR
Description: L-hydroxyproline utilization repressor Score: 20.42 out of 22.40
Confidence: weak
DmdR1
Description: Iron(II)-dependent repressor Score: 22.86 out of 36.53
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 18.47 out of 28.19
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS substrates
Type II PKS
TFBS Finder
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
Type II PKS gene cluster prediction details
Predictions of starter units, elongations, product classes, and potential molecular weights for type II PKS clusters. More detailed information is available here.
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 26.06 out of 27.18
Confidence: strong
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 25.90 out of 27.18
Confidence: strong
AfsR
Description: Pleiotropic regulatory for antibiotic production Score: 18.46 out of 23.05
Confidence: medium
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 22.14 out of 27.18
Confidence: medium
Additional weak hits (4):
LexA
Description: Repressor of DNA damage response Score: 19.88 out of 29.65
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 18.93 out of 28.19
Confidence: weak
LexA
Description: Repressor of DNA damage response Score: 23.09 out of 29.65
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor Score: 19.35 out of 27.04
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
NC_003888.3 - Region 15 - NRPS-like,T1PKS,prodigiosin
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
NRPS-like: cds((PP-binding or NAD_binding_4) and (AMP-binding or A-OX)) T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) prodigiosin: (PPDK_N and AMP-binding and PP-binding and PKS_KS)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
No hits above weak threshold.
Weak hits (2):
ZuR
Description: Zinc-responsive repressor Score: 18.26 out of 28.19
Confidence: weak
NrtR
Description: NAD synthesis repressor Score: 19.59 out of 35.63
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 15, location 6429548 - 6476442:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
RiPP-like: (strepbact or Antimicrobial14 or Bacteriocin_IId or BacteriocIIc_cy or Bacteriocin_II or Bacteriocin_IIi or Lactococcin or Antimicrobial17 or Lactococcin_972 or Bacteriocin_IIc or LcnG-beta or Cloacin or Linocin_M18 or TIGR03651 or TIGR03693 or TIGR03601 or TIGR03795 or TIGR03975 or DUF692 or TIGR01193 or (YcaO or TIGR03604))
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
No matches found.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
OsdR
Description: Development and stress management regulator Score: 27.49 out of 30.12
Confidence: strong
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
ArgR
Description: Regulator of arginine biosynthesis genes Score: 18.06 out of 20.01
Confidence: medium
OsdR
Description: Development and stress management regulator Score: 25.84 out of 30.12
Confidence: medium
Additional weak hits (2):
NuR
Description: Nickel-responsive regulator Score: 20.22 out of 30.98
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 17.15 out of 28.19
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
azolemycin B, azolemycin A, azolemycin D, azolemycin C
Streptomyces sp. FXJ1.264
Similar gene clusters
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
CatR
Description: H2O2-responsive repressor Score: 19.79 out of 25.31
Confidence: medium
DasR
Description: N-acetylglucosamine dependent repressor Score: 21.49 out of 27.04
Confidence: medium
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
NC_003888.3 - Region 19 - T1PKS,butyrolactone,hydrogen-cyanide
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS)) butyrolactone: AfsA hydrogen-cyanide: (Fer2_4 and cds(Pyr_redox_2 and Fer2_BFD) and DAO)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
HypR
Description: L-hydroxyproline utilization repressor Score: 22.40 out of 22.40
Confidence: strong
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production Score: 17.62 out of 19.52
Confidence: medium
Additional weak hits (6):
LexA
Description: Repressor of DNA damage response Score: 19.81 out of 29.65
Confidence: weak
NrtR
Description: NAD synthesis repressor Score: 20.15 out of 35.63
Confidence: weak
CsoR
Description: Copper-responsive repressor Score: 21.37 out of 32.38
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor Score: 16.96 out of 22.40
Confidence: weak
NrtR
Description: NAD synthesis repressor Score: 18.41 out of 35.63
Confidence: weak
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production Score: 16.86 out of 19.52
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 19, location 6880897 - 6956537:
Rough prediction of core scaffold based on assumed PKS linker matching; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
SCO6273: mal
PKS_AT (565..854): mal
ATSignature: Malonyl-CoA
Top 3 matches:
Malonyl-CoA: 91.7%
inactive: 70.8%
Propionyl-CoA: 54.2%
minowa: Malonyl-CoA
Prediction, score:
Malonyl-CoA: 171.9
inactive: 73.8
Methoxymalonyl-CoA: 62.1
Methylmalonyl-CoA: 40.8
Propionyl-CoA: 29.3
Acetyl-CoA: 18.6
Isobutyryl-CoA: 15.6
2-Methylbutyryl-CoA: 14.1
Benzoyl-CoA: 9.6
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
SCO6274: mal - mal
PKS_AT (578..871): mal
ATSignature: Malonyl-CoA
Top 3 matches:
Malonyl-CoA: 91.7%
inactive: 70.8%
Propionyl-CoA: 54.2%
minowa: Malonyl-CoA
Prediction, score:
Malonyl-CoA: 171.9
inactive: 73.8
Methoxymalonyl-CoA: 62.1
Methylmalonyl-CoA: 40.8
Propionyl-CoA: 29.3
Acetyl-CoA: 18.6
Isobutyryl-CoA: 15.6
2-Methylbutyryl-CoA: 14.1
Benzoyl-CoA: 9.6
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
PKS_AT (2332..2621): mal
ATSignature: Malonyl-CoA
Top 3 matches:
Malonyl-CoA: 91.7%
inactive: 70.8%
Propionyl-CoA: 54.2%
minowa: Malonyl-CoA
Prediction, score:
Malonyl-CoA: 171.9
inactive: 73.8
Methoxymalonyl-CoA: 62.1
Methylmalonyl-CoA: 40.8
Propionyl-CoA: 29.3
Acetyl-CoA: 18.6
Isobutyryl-CoA: 15.6
2-Methylbutyryl-CoA: 14.1
Benzoyl-CoA: 9.6
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
Ethylmalonyl-CoA: 0.0
CHC-CoA: 0.0
3-Methylbutyryl-CoA: 0.0
SCO6275: mal - mal - mal
PKS_AT (548..829): mal
ATSignature: Malonyl-CoA
Top 3 matches:
Malonyl-CoA: 91.7%
inactive: 70.8%
Methylmalonyl-CoA: 58.3%
minowa: Malonyl-CoA
Prediction, score:
Malonyl-CoA: 209.2
inactive: 103.5
Methoxymalonyl-CoA: 75.4
Methylmalonyl-CoA: 68.4
Isobutyryl-CoA: 37.8
2-Methylbutyryl-CoA: 31.3
Benzoyl-CoA: 30.9
Acetyl-CoA: 30.9
Propionyl-CoA: 29.8
Ethylmalonyl-CoA: 28.1
fatty_acid: 20.5
CHC-CoA: 16.6
3-Methylbutyryl-CoA: 15.4
trans-1,2-CPDA: 15.0
PKS_AT (1549..1846): mal
ATSignature: Malonyl-CoA
Top 3 matches:
Malonyl-CoA: 95.8%
inactive: 79.2%
Methylmalonyl-CoA: 58.3%
minowa: Malonyl-CoA
Prediction, score:
Malonyl-CoA: 203.5
inactive: 97.1
Methoxymalonyl-CoA: 72.9
Methylmalonyl-CoA: 61.7
Isobutyryl-CoA: 41.7
Propionyl-CoA: 30.9
Ethylmalonyl-CoA: 16.8
Acetyl-CoA: 16.8
2-Methylbutyryl-CoA: 14.2
Benzoyl-CoA: 13.3
3-Methylbutyryl-CoA: 9.0
fatty_acid: 8.4
CHC-CoA: 3.9
trans-1,2-CPDA: 0.0
PKS_AT (3286..3585): mal
ATSignature: Malonyl-CoA
Top 3 matches:
Malonyl-CoA: 100.0%
inactive: 87.5%
2-Rhyd-Malonyl-CoA: 54.2%
minowa: Malonyl-CoA
Prediction, score:
Malonyl-CoA: 207.6
inactive: 105.9
Methoxymalonyl-CoA: 62.0
Methylmalonyl-CoA: 50.9
Propionyl-CoA: 30.8
Ethylmalonyl-CoA: 17.7
Isobutyryl-CoA: 16.7
2-Methylbutyryl-CoA: 15.7
Acetyl-CoA: 15.4
Benzoyl-CoA: 11.6
CHC-CoA: 9.5
trans-1,2-CPDA: 0.0
fatty_acid: 0.0
3-Methylbutyryl-CoA: 0.0
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Two-component system AfsQ1-Q2, activator of antibiotic production
NC_003888.3 - Region 20 - NRPS,thioamide-NRP
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
thioamide-NRP: (ATP-grasp and AMP-binding and PP-binding and (DUF98 or Orn_Arg_deC_N or Orn_DAP_Arg_deC)) NRPS: cds(Condensation and (AMP-binding or A-OX))
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
virginiafactin A, virginiafactin B, virginiafactin C, virginiafactin D
Pseudomonas sp. QS1027
Similar gene clusters
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
AfsR
Description: Pleiotropic regulatory for antibiotic production Score: 18.46 out of 23.05
Confidence: medium
AbrC3
Description: Antibiotic production activator Score: 18.16 out of 18.16
Confidence: strong
NuR
Description: Nickel-responsive regulator Score: 28.65 out of 30.98
Confidence: strong
DmdR1
Description: Iron(II)-dependent repressor Score: 29.71 out of 36.53
Confidence: medium
Additional weak hits (2):
ZuR
Description: Zinc-responsive repressor Score: 17.65 out of 28.19
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 16.95 out of 28.19
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 23, location 7088263 - 7142447:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
Lanthipeptides
TFBS Finder
Pfam domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Lanthipeptide predictions
Shows the possible core peptides for each biosynthetic enzyme. Includes CompaRiPPson results for any available databases, with a detailed explanation here.
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
No hits above weak threshold.
Weak hits (1):
LexA
Description: Repressor of DNA damage response Score: 19.96 out of 29.65
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Lanthipeptides
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of lanthionine bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.
SCO6682 - Class III
Cleavage pHMM score: 32.20
RODEO score: 0
Monoisotopic mass: 1954.0 Da
Molecular weight: 1955.2 Da
Number of bridges: 2
Alternative weights
(assuming N unmodified Ser/Thr residues)
1973.2 Da N = 1
1991.2 Da N = 2
2009.2 Da N = 3
2027.3 Da N = 4
2045.3 Da N = 5
2063.3 Da N = 6
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
No hits above weak threshold.
Weak hits (4):
ZuR
Description: Zinc-responsive repressor Score: 18.72 out of 28.19
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 17.34 out of 28.19
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 18.85 out of 28.19
Confidence: weak
HypR
Description: L-hydroxyproline utilization repressor Score: 16.96 out of 22.40
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
PKS-like: (t2pks2 or ksIII) T1PKS: cds(PKS_AT and (PKS_KS or ene_KS or mod_KS or hyb_KS or itr_KS or tra_KS))
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production Score: 18.33 out of 19.52
Confidence: strong
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 26, location 7570411 - 7618555:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
SCO6827: mmal
PKS_AT (548..845): mmal
ATSignature: Methylmalonyl-CoA
Top 3 matches:
Methylmalonyl-CoA: 91.7%
Propionyl-CoA: 79.2%
Malonyl-CoA: 79.2%
minowa: Methylmalonyl-CoA
Prediction, score:
Methylmalonyl-CoA: 165.7
Ethylmalonyl-CoA: 150.9
Methoxymalonyl-CoA: 141.2
2-Methylbutyryl-CoA: 118.3
Malonyl-CoA: 106.6
trans-1,2-CPDA: 94.3
Benzoyl-CoA: 90.8
Isobutyryl-CoA: 90.1
Propionyl-CoA: 89.7
CHC-CoA: 65.8
Acetyl-CoA: 62.2
inactive: 45.4
3-Methylbutyryl-CoA: 43.8
fatty_acid: 23.7
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Two-component system AfsQ1-Q2, activator of antibiotic production
NC_003888.3 - Region 24 - lanthipeptide-class-i
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
lanthipeptide-class-i: ((LANC_like and (Lant_dehydr_N or Lant_dehydr_C)) and not (YcaO or TIGR03604))
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
Lanthipeptides
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
No matches found.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Lanthipeptide predictions
Shows the possible core peptides for each biosynthetic enzyme. Includes CompaRiPPson results for any available databases, with a detailed explanation here.
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
No hits above weak threshold.
Weak hits (1):
ZuR
Description: Zinc-responsive repressor Score: 18.92 out of 28.19
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
Lanthipeptides
RREFinder
TFBS Finder
Core peptide predictions
Lists the possible core peptides in the region. Each core peptide lists the number of lanthionine bridges, possible molecular weights, and the scores for cleavage site prediction and RODEO.
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
other: (LmbU or Neocarzinostat or bcpB or frbD or mitE or vlmB or prnB or CaiA or bacilysin or orf2_PTase) T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
reset view
zoom to selection
Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
12-epi-hapalindole J isonitrile, ambiguine A isonitrile, ambiguine B isonitrile, ambiguine C isonitrile, ambiguine D isonitrile, ambiguine E isonitrile, ambiguine K isonitrile, ambiguine L isonitrile, ambiguine I isonitrile, ambiguine J isonitrile
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
HypR
Description: L-hydroxyproline utilization repressor Score: 22.05 out of 22.40
Confidence: strong
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production Score: 19.52 out of 19.52
Confidence: strong
DasR
Description: N-acetylglucosamine dependent repressor Score: 24.91 out of 27.04
Confidence: strong
CatR
Description: H2O2-responsive repressor Score: 18.39 out of 25.31
Confidence: medium
DasR
Description: N-acetylglucosamine dependent repressor Score: 22.47 out of 27.04
Confidence: medium
DasR
Description: N-acetylglucosamine dependent repressor Score: 23.76 out of 27.04
Confidence: medium
Additional weak hits (3):
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 20.71 out of 27.18
Confidence: weak
BldD
Description: Development and antibiotic global regulator Score: 19.33 out of 23.43
Confidence: weak
BldD
Description: Development and antibiotic global regulator Score: 19.03 out of 23.43
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS substrates
TFBS Finder
NRPS/PKS substrate predictions
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
AfsR
Description: Pleiotropic regulatory for antibiotic production Score: 19.75 out of 23.05
Confidence: medium
Additional weak hits (6):
NrtR
Description: NAD synthesis repressor Score: 18.55 out of 35.63
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 16.48 out of 28.19
Confidence: weak
NrtR
Description: NAD synthesis repressor Score: 19.43 out of 35.63
Confidence: weak
AfsQ1
Description: Two-component system AfsQ1-Q2, activator of antibiotic production Score: 16.86 out of 19.52
Confidence: weak
NrdR
Description: Represses ribonucleotide reductase encoding genes Score: 20.86 out of 27.18
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor Score: 20.74 out of 27.04
Confidence: weak
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
TFBS Finder
TFBS definitions
Shows descriptions for Transcription Factor Binding Site models
NC_003888.3 - Region 27 - NRP-metallophore,NRPS,T3PKS,terpene
Shows the layout of the region, marking coding sequences and areas of interest. Clicking a gene will select it and show any relevant details. Clicking an area feature (e.g. a candidate cluster) will select all coding sequences within that area. Double clicking an area feature will zoom to that area. Multiple genes and area features can be selected by clicking them while holding the Ctrl key. More detailed help is available here.
T3PKS: (Chal_sti_synt_C or Chal_sti_synt_N) NRP-metallophore: (VibH_like or Cy_tandem or (cds(Condensation and AMP-binding) and ((IBH_Asp and not SBH_Asp) or IBH_His or TBH_Asp or CyanoBH_Asp1 or CyanoBH_Asp2 or IPL or SalSyn or (EntA and EntC) or (GrbD and GrbE) or (FbnL and FbnM) or PvdO or PvdP or (Orn_monoox and not (KtzT or MetRS-like)) or Lys_monoox or VbsL))) NRPS: cds(Condensation and (AMP-binding or A-OX)) terpene: (Terpene_synth or Terpene_synth_C or phytoene_synt or Lycopene_cycl or terpene_cyclase or NapT7 or fung_ggpps or fung_ggpps2 or trichodiene_synth or TRI5)
Legend:
core biosynthetic genes
additional biosynthetic genes
transport-related genes
regulatory genes
other genes
resistance
TTA codons
binding site
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Gene details
Shows details of the most recently selected gene, including names, products, location, and other annotations.
Select a gene to view the details available for it
Gene overview
NRPS/PKS domains
MIBiG comparison
ClusterBlast
KnownClusterBlast
SubClusterBlast
TFBS Finder
NRPS/PKS modules
Pfam domains
TIGRFAM domains
Gene/CDS overview
A brief tabular summary of genes/CDS features within the region. Filtering the table will also search biosynthetic profiles and gene function data. If enabled, the overview will then zoom to show the area covered by the filtered selection. Genes selected in the region drawing above will be marked in the table with an indicator to the left of the gene name.
Filter:
Automatically zoom to filtered/selected features
Identifier
Product
Length
Function
Sequence
NCBI Blast
Filter details
NT
AA
NT
AA
No genes match the given filter
Detailed domain annotation
Shows NRPS- and PKS-related domains for each feature that contains them. Click on each domain for more information about the domain's location, consensus monomer prediction, and other details. A domain glossary is available here, and an explanation of the visualisation is available here.
Selected features only
Show module domains
Similar gene clusters
Shows areas that are similar to the current region to a reference database. Mouseover a score cell in the table to get a breakdown of how the score was calculated.The MIBiG database.
Click on an accession to open that entry in the MIBiG database.
marinacarboline A, marinacarboline B, marinacarboline C, marinacarboline D
Marinactinospora thermotolerans
Similar gene clusters
Shows regions from the antiSMASH database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the antiSMASH database (if applicable).
Similar known gene clusters from MIBiG 3.1
Shows clusters from the MiBIG database that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region. Click on an accession to open that entry in the MiBIG database.
Similar subclusters
Shows sub-cluster units that are similar to the current region. Genes marked with the same colour are interrelated. White genes have no relationship. Click on reference genes to show details of similarities to genes within the current region.
No matches found.
Transcription Factor Binding Sites
Detailed information for Transcription Factor Binding Site hits, including surrounding genes where applicable. The strand of the match is shown by an arrow underneath the match. Detailed documentation is available here.
Binding sites found:
ZuR
Description: Zinc-responsive repressor Score: 23.21 out of 28.19
Confidence: medium
ZuR
Description: Zinc-responsive repressor Score: 21.69 out of 28.19
Confidence: medium
ZuR
Description: Zinc-responsive repressor Score: 22.49 out of 28.19
Confidence: medium
AbrC3
Description: Antibiotic production activator Score: 18.16 out of 18.16
Confidence: strong
Additional weak hits (8):
ZuR
Description: Zinc-responsive repressor Score: 17.18 out of 28.19
Confidence: weak
LexA
Description: Repressor of DNA damage response Score: 20.83 out of 29.65
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 19.27 out of 28.19
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 17.75 out of 28.19
Confidence: weak
DasR
Description: N-acetylglucosamine dependent repressor Score: 20.12 out of 27.04
Confidence: weak
ZuR
Description: Zinc-responsive repressor Score: 17.33 out of 28.19
Confidence: weak
ArgR
Description: Regulator of arginine biosynthesis genes Score: 17.16 out of 20.01
Confidence: weak
NrtR
Description: NAD synthesis repressor Score: 19.14 out of 35.63
Confidence: weak
Module view
Shows module structures for each candidate cluster in NRPS and PKS regions. Genes are shown in predicted order, and are only present when containing at least one complete module. A domain glossary is available here, and an explanation of the visualisation is available here.
Legend
Detailed Pfam domain annotation
Shows Pfam domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description. Domains with a bold border have Gene Ontology information.
Selected features only
Expand to show all names
Detailed TIGRFAM domain annotation
Shows TIGRFAM domains found in each gene within the region. Click on each domain for more information about the domain's accession, location, and description.
Selected features only
Expand to show all names
NRPS/PKS products
NRPS/PKS substrates
TFBS Finder
Predicted core structure(s)
Shows estimated product structure and polymer for each candidate cluster in the region. To show the product, click on the expander or the candidate cluster feature drawn in the overview.
For candidate cluster 34, location 8475101 - 8549581:
Rough prediction of core scaffold based on assumed PKS/NRPS colinearity; tailoring reactions not taken into account
Shows the predicted substrates for each adenylation domain and acyltransferase within genes. Each gene prediction can be expanded to view detailed predictions of each domain. Each prediction can be expanded to view the predictions by tool (and, for some tools, further expanded for extra details).
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