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EBIDatabasesQuickGO

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Search for terms by keyword or ID:
apoptosis
GO:0006915
Search for proteins by name or accession:
tropomyosin
P06727
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Displaying annotations FIRST to LAST of TOTAL Page size: Additional filters: Bookmarkable link
Database
Gene Product ID
Symbol
Qualifier
GO Identifier
GO Term Name
Aspect
Original GO ID
Original GO Term Name
Evidence
Reference
With
Taxon
Date
Assigned By
Product Form ID
Name
Synonym
Type
Taxon Name
Sequence

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 You may need to increase this value if your annotation set contains more than 1000 annotations.

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Display options

Use this filter to ensure that the annotation table display provides the information you require.

Columns that are currently displayed in the annotation table are indicated in the list below by a checked tick box.
You can tailor the annotation table display to your requirements by selecting or deselecting individual columns.

Display columns:
Database
Gene Product ID
Symbol
Qualifier
GO Identifier
GO Term Name
Aspect
Original GO ID
Original GO Term Name
Evidence
Reference
With
Taxon
Date
Assigned By
Product Form ID
Name
Synonym
Type
Taxon Name
Sequence

You can use the options below to choose whether to be shown an annotation set or a protein list.

Show:
Annotations that match the current filter criteria
Proteins with annotations that match the current filter criteria
All annotations to proteins with annotations that match the current filter criteria

ID Mapping

Use this filter to change between different sequence identifier types.
QuickGO's default is to show annotations to UniProtKB (Swiss-Prot and TrEMBL) accession numbers.

Database CodeDatabase Name
UniProtKB Universal Protein Knowledgebase
UniProtKB/Swiss-Prot UniProtKB/Swiss-Prot
UniProtKB/TrEMBL UniProtKB-TrEMBL protein sequence database
CGD Candida Genome Database
dictyBase dictyBase
EcoCyc Encyclopedia of E. coli metabolism
EMBL EMBL Nucleotide Sequence Database
ENSEMBL_GeneID Ensembl database of automatically annotated genomic data
ENSEMBL_ProteinID Ensembl database of automatically annotated genomic data
ENSEMBL_TranscriptID Ensembl database of automatically annotated genomic data
FB FlyBase
GeneDB_Pfalciparum Plasmodium falciparum GeneDB
GeneID NCBI Gene
GR Gramene
HGNC HUGO Gene Nomenclature Committee
IPI International Protein Index
MGI Mouse Genome Informatics
PomBase PomBase
RefSeq RefSeq
RGD Rat Genome Database
SGD Saccharomyces Genome Database
TAIR The Arabidopsis Information Resource
TIGR_CMR EGAD database at the J. Craig Venter Institute
UniGene UniGene
WB WormBase database of nematode biology
ZFIN Zebrafish Information Network

QuickGO maps between different identifier types by using a combination of mapping files provided by the databases, and using identifier cross-references supplied by UniProtKB.

If more than one identifier type needs to be used to map all required sequences, drag the selected databases to change the order in which identifiers are found.

Filter

Summary
summary
The tabs in this dialog allow you to filter the set of GO annotations that QuickGO displays.
You can apply multiple filtering parameters to restrict the set of annotations to those that match, for example:
  • a list of gene/protein identifiers (ID)
  • gene products from specified taxonomic groups (Taxon)
  • annotations that apply certain Qualifier types
  • those that are supported by a particular Reference or Evidence type
  • those that use a particular source of external annotation data
  • annotations that have been supplied by a particular GO annotation group
Currently selected additional filtering parameters:
Gene Product ID
proteinID
Find annotations for a defined set of gene or protein identifiers:

To restrict the annotations to a set of gene or protein identifiers, enter a list of IDs in the text box below, separated by commas, spaces or newlines. There is no limit on the number of identifers that can be entered into this box.

You can use identifier types other than UniProtKB accessions (for the full range of acceptable ID types, please see the ID Mapping tab on the Annotation Tool Bar). However please note that QuickGO will automatically map the identifiers to UniProtKB accessions, and unless you have additionally selected a specific Identifier Type to be returned in the annotation set, the default behaviour of this tool will be to display the filtered set of annotations with their corresponding UniProtKB accession numbers.

OR select a list of proteins:
BHF-UCL The set of Cardiovascular-associated proteins being prioritised for annotation by the Cardiovascular Gene Ontology Annotation Initiative located at University College London http://www.ucl.ac.uk/cardiovasculargeneontology
KRUK The set of proteins associated with renal processes being prioritised for annotation by the EBI's Renal Gene Ontology Annotation Initiative http://www.ebi.ac.uk/GOA/kidney/index.html
ReferenceGenome The set of human proteins being comprehensively curated by the UniProt-GOA project as part of the GO Consortium's Reference Genome initiative http://www.geneontology.org/GO.refgenome.shtml
Currently selected additional filtering parameters:
Taxon
proteinTaxon
To filter by species/taxonomic group, list taxon identifiers in the text box or select one or more of the pre-defined taxonomic groups below.
9606 Human
10090 Mouse
40674 Mammalia
3398 Magnoliophyta (flowering plants)
2759 Eukaryota
1117 Cyanobacteria

Visit UniProt Taxonomy to find identifiers for other taxonomic groups

Currently selected additional filtering parameters:
Qualifier
qualifier

The Qualifier column in a GO annotation is used for flags that modify the interpretation of an annotation. Allowable values are NOT, contributes_to, and colocalizes_with.

Further details on the usage of the qualifier column can be found here.

contributes_to An individual protein that is part of a complex can be annotated to terms that describe the action of the complex. This qualifier allows us to distinguish individual subunit from complex functions e.g. This protein contributes_to 'ribosome binding' when part of a complex but does not perform this function on its own.
NOT|colocalizes_with NOT|colocalizes_with
NOT|contributes_to NOT|contributes_to
colocalizes_with Proteins that are transiently or peripherally associated with an organelle or complex may be annotated to the relevant cellular component term, using the 'colocalizes_with' qualifier.
NOT Used to make an explicit note that the protein is not associated with the GO term e.g. This protein does NOT have 'kinase activity' as expected, disrupted/missing ATP binding domain.
(none)

Currently selected additional filtering parameters:
GO Identifier
goID
Select the terms that you wish to use

Predefined GO term sets:

Enter a list of GO identifiers (GO:nnnnnnn), separated by space, comma or newline characters:

Select how you want to use the terms that you have chosen
Use these terms as a GO slim
Find annotations to descendants of these terms (annotations will display the original GO terms applied)
Select which relationship an annotated term should have to the terms above:
Default behaviour (is_a, part_of and occurs_in relationships only)
exact match
is_a only
is_a, part_of, occurs_in, regulates, positively_regulates and negatively_regulates
Use all relationships
Custom

Currently selected additional filtering parameters:
Reference
ref
DOI:* Digital Object Identifier
GO_REF:* Gene Ontology Database references
PMID:* PubMed
Reactome:* Reactome - a curated knowledgebase of biological pathways
GO_REF:0000002 InterPro2GO
GO_REF:0000003 EC2GO
GO_REF:0000004 Swiss-Prot Keywords2GO
GO_REF:0000019 Compara
GO_REF:0000020 HAMAP2GO
GO_REF:0000023 Subcellular Location2GO
GO_REF:0000035 EnsemblPlants

References (with or without database prefix):

Currently selected additional filtering parameters:
Evidence
evidence

A full description of evidence codes and their usage can be found here.

IMP,IGI,IPI,IDA,IEP,EXP Manual Experimental
IMP,IGI,IPI,IDA,IEP,EXP,ISS,TAS,NAS,ND,IC,RCA,IBA,IBS,IKR,IRD,ISA,IGC Manual All
IMP inferred from mutant phenotype
IGI inferred from genetic interaction
IPI inferred from physical interaction
IGC Inferred from Genomic Context
ISS inferred from sequence or structural similarity
IDA inferred from direct assay
IEP inferred from expression pattern
IEA inferred from electronic annotation
TAS traceable author statement
NAS non-traceable author statement
ND no data
IC inferred by curator
RCA reviewed computational annotation
ISA inferred from sequence alignment
EXP inferred from experiment
IBA Inferred from Biological aspect of Ancestor
IBD Inferred from Biological aspect of Descendant
IKR Inferred from Key Residues
IRD Inferred from Rapid Divergence
ISO inferred from sequence orthology

Currently selected additional filtering parameters:
With
with
AGI_LocusCode:* Arabidopsis Genome Initiative
CGD:* Candida Genome Database
CHEBI:* Chemical Entities of Biological Interest
dictyBase:* dictyBase
EC:* Enzyme Commission
EchoBASE:* EchoBASE post-genomic database for Escherichia coli
ECK:* EcoGene Database of Escherichia coli Sequence and Function
EcoCyc:* Encyclopedia of E. coli metabolism
ECOGENE:* EcoGene Database of Escherichia coli Sequence and Function
EcoliWiki:* EcoliWiki from EcoliHub
EMBL:* EMBL Nucleotide Sequence Database
FB:* FlyBase
GB:* GenBank
GenBank:* GenBank
GeneDB_Spombe:* Schizosaccharomyces pombe GeneDB
GO:* Gene Ontology Database
GR_PROTEIN:* Gramene
HAMAP:* High-quality Automated and Manual Annotation of microbial Proteomes
InterPro:* InterPro database of protein domains and motifs
JCVI_CMR:* EGAD database at the J. Craig Venter Institute
JCVI_GenProp:* Genome Properties database at the J. Craig Venter Institute
KEGG_LIGAND:* KEGG LIGAND Database
MaizeGDB_Locus:* MaizeGDB
MGI:* Mouse Genome Informatics
NCBI_gi:* NCBI databases
NCBI_GP:* NCBI GenPept
PANTHER:* Protein ANalysis THrough Evolutionary Relationships
PDB:* Protein Data Bank
PIR:* Protein Information Resource
PomBase:* PomBase
protein_id:* DDBJ / EMBL-Bank / GenBank
PubChem_Compound:* NCBI PubChem database of chemical structures
PubChem_Substance:* NCBI PubChem database of chemical substances
RefSeq:* RefSeq
RGD:* Rat Genome Database
SGD:* Saccharomyces Genome Database
SP_KW:* UniProt Knowledgebase keywords
SP_SL:* UniProt Subcellular Location vocabulary
TAIR:* The Arabidopsis Information Resource
UniProtKB:* Universal Protein Knowledgebase
WB:* WormBase database of nematode biology
ZFIN:* Zebrafish Information Network

Annotated with (with or without database prefix):

Currently selected additional filtering parameters:
Aspect
aspect
You can use the check boxes below to limit the scope of the returned annotation set to terms from one or more specific ontologies:
Molecular Function
Biological Process
Cellular Component
Currently selected additional filtering parameters:
Assigned By
from
Select annotation from:
AgBase AgBase resource for functional analysis of agricultural plant and animal gene products
BHF-UCL Cardiovascular Gene Ontology Annotation Initiative
CGD Candida Genome Database
DFLAT Developmental FunctionaL Annotation at Tufts
dictyBase dictyBase
EcoCyc Encyclopedia of E. coli metabolism
EcoliWiki EcoliWiki from EcoliHub
ENSEMBL Ensembl database of automatically annotated genomic data
EnsemblPlants/Gramene Ensembl Plants, the Ensembl Genomes database for accessing plant genome data
FlyBase FlyBase
GDB Human Genome Database
GeneDB_Pfalciparum Plasmodium falciparum GeneDB
GOC Gene Ontology Consortium
GR Gramene
HGNC HUGO Gene Nomenclature Committee
HPA Human Protein Atlas tissue profile information
IntAct IntAct protein interaction database
InterPro InterPro database of protein domains and motifs
JCVI J. Craig Venter Institute
LIFEdb LifeDB
MGI Mouse Genome Informatics
MTBBASE Collection and Refinement of Physiological Data on Mycobacterium
NTNU_SB Norwegian University of Science and Technology, Systems Biology team
PAMGO_GAT Genome Annotation Tool (Agrobacterium tumefaciens C58); PAMGO Interest Group
PINC Proteome Inc.
PomBase PomBase
Reactome Reactome - a curated knowledgebase of biological pathways
RefGenome GO Reference Genomes
RGD Rat Genome Database
Roslin_Institute Roslin Institute
SGD Saccharomyces Genome Database
TAIR The Arabidopsis Information Resource
TIGR J. Craig Venter Institute
UniProtKB Universal Protein Knowledgebase
WormBase WormBase database of nematode biology
ZFIN Zebrafish Information Network

Currently selected additional filtering parameters:
Advanced
advanced
Enter query parameters in the text box below. The format of advanced annotation queries is described here.
Currently selected additional filtering parameters:

Please note that UniProt-GOA only integrates manual annotations from external groups. Additionally, external annotations can only be incorporated where external sequence identifiers can be mapped to corresponding UniProtKB accession numbers and the GO identifier associated has not been made secondary.
Information on the numbers of external annotations integrated into the UniProt-GOA dataset can be found in the annotation break-down provided for the UniProt-GOA gene association file.
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Please send comments, suggestions or bug reports to goa@ebi.ac.uk. Click here for details of how to cite UniProt-GOA and QuickGO.
18ms
Hostnameves-oy-5f.ebi.ac.uk
Up since11:39 8/2/2012
Stamp2012-02-10-02-50-31
Version37
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