HOME DOWNLOAD CITATION HELP
Umass Logo PSB Logo
(?) Enter a search word or phrase (left box), optionally select an appropriate field (middle), and hit the search button or press enter. This search engine is NOT case sensitive.

Use wild characters " ? " and " * " for efficient search:
  • ? : A single character. E.g., trehalose?phosphatase covers both trehalose phosphatase and trehalose-phosphatase, of which, only the latter fits the nomenclature used in this database.
  • * : Any number of characters. E.g.,tre-* brings all genes from trehalase family; coenzyme*A covers coenzyme A, coenzyme-A, and coenzymeA.
Network Biomass WormPaths
FBAFlux Balance Analysis PEAPathway Enrichment Analysis
WormClustClustering- and enrichment-based association of genes with the metabolic network
Gene Overview
Name ..................................................... : F25C8.1
Sequence ID ..................................................... : F25C8.1
Status (?) Can be one of the following two: Curated (manually annotated or based on a curated SACURE result), or Not curated (SACURE result reported without manual check). ..................................................... : Curated
KO (?) The KEGG orthology group (KO) that is associated with this gene. ..................................................... : Not determined
Enzymes in the model (?) Enzymes that are part of the current metabolic network model. ..................................................... : 1.3.3.6names: acyl-CoA oxidase;fatty acyl-CoA oxidase;acyl coenzyme A oxidase;fatty acyl-coenzyme A oxidase
Other enzymes (?) Enzymes that are associated with this gene in the WormFlux database, but not included in the current network model. ..................................................... : None
Model reactions (?) Reactions that are part of the current metabolic network model.

See the bottom of this page for a table of reactions. ..................................................... 		: None
Relevant model reactions (?) Model reactions that follow from the KEGG reactions associated with this gene, but that exclude this gene due to differences in reaction specificity or localization compared to the predictions for this gene. ..................................................... : RCC0167, RCC0095, RCC0168, RCC0091, RCC0107, RCC0126, RCC0106, RCC0096, RCC0104, RCC0092, RCC0090, RCC0165, RCC0097, RCC0098, RCC0125, RCC0166, RCC0093, RCC0103, RCC0089, RCC0088, RCC0094
Other reactions (?) KEGG reactions that are associated with this gene in the WormFlux database, but not included in the current network model. ..................................................... : None

In WormPaths (?) Pathway maps where this gene is represented are listed here. ..................................................... : Not yet represented in WormPaths maps.
► | Gene-KO-Enzyme-Reaction Associations (click to view)▼ | Gene-KO-Enzyme-Reaction Associations (click to hide)
SACURE (?) Associations established by SACURE (Systematic Annotation by CUration and REgression).

SACURE pipeline annotates genes based on a logistic function that converts evidence from multiple resources into a KEGG orthology decision, which is then associated with enzymes and reactions. False positives and false negatives of the logistic function are separated out during manual curation for making exceptional decisions.

See HELP in the upper menu for a description of the SACURE pipeline.

See below for a summary of association scores from SACURE.

Results (?) KO: Associated KEGG Orthology groups
Enzyme: Associated enzymes in EC numbering
Reactions: Associated reactions from KEGG reaction database.

Confidence level is indicated for each association as a function of overall SACURE score (a probability of true association; see below in the SACURE scores section). Score ranges for HIGH, MEDIUM, and LOW confidence levels are >0.99, 0.90-0.99, and 0.50-0.90, respectively. If an association is accepted with a probability less than 0.50 (due to an exceptional reason), then the confidence level is LOW.

Not determined indicates that annotation analysis resulted in no clear associations.

ID - Confidence
KO Not determined
Enzyme Not determined
Reaction Not determined

Comments

  • SACURE results are not available.

Reconstruction (?) Associations established during the reconstruction process by lenient annotation, literature search, or gap-filling.

Results (?) KO: Associated KEGG Orthology groups
Enzyme: Associated enzymes in EC numbering
Reactions: Associated reactions from KEGG reaction database or custom reactions developed during reconstruction.

ID - Confidence
KO Not determined
Enzyme 1.3.3.6 - High
Reaction R00388 - High

Comments

  • Evidence was based on PMID: 11025529. This gene was eliminated because of status (pseudogene).

► | SACURE Summary (click to view)▼ | SACURE scores (click to hide)
Not available
► | Localization scores (click to view)▼ | Localization scores (click to hide)
Not available
► | Phylogenetic tree (click to view)▼ | Phylogenetic tree (click to hide)
Not available
Reactions
ID Enzyme Reactants Products Genes (?) Multiple genes are separated by OR (I) or AND (&).

I indicates that genes are redundant within the group (e.g. paralogs encoding the same enzyme).
& indicates that genes are non-redundant within the group (e.g. genes encoding different subunits of the same enzyme).

If there are multiple groups of genes, as in an enzyme complex with some enzymes associated with multiple genes, or in a case where the same enzyme is associated with different orthology groups with paralogs, each group with multiple genes is shown in parentheses. 		Pathway

NO REACTIONS FOUND FOR THIS ITEM

The information and tools provided in this website are to be used for academic purposes only.