goslim plant.owl
type: Ontology
version IRI: goslim plant.owl
version info: 2026-04-06

definition
type: AnnotationProperty

term tracker item
type: AnnotationProperty
database_cross_reference: IAO:0000233
has_obo_namespace: external
id: term_tracker_item
is class level: true
is metadata tag: true
shorthand: term_tracker_item

has ontology root term
type: AnnotationProperty
database_cross_reference: IAO:0000700
has_obo_namespace: external
id: has_ontology_root_term
is class level: true
is metadata tag: true
shorthand: has_ontology_root_term

term replaced by
type: AnnotationProperty

chebi ph7 3
type: AnnotationProperty
comment: Rhea list of ChEBI terms representing the major species at pH 7.3.
sub property of: subset_property

gocheck do not annotate
type: AnnotationProperty
comment: Term not to be used for direct annotation
sub property of: subset_property

gocheck obsoletion candidate
type: AnnotationProperty
comment: Terms planned for obsoletion
sub property of: subset_property

goslim agr
type: AnnotationProperty
comment: AGR slim
sub property of: subset_property

goslim aspergillus
type: AnnotationProperty
comment: Aspergillus GO slim
sub property of: subset_property

goslim candida
type: AnnotationProperty
comment: Candida GO slim
sub property of: subset_property

goslim chembl
type: AnnotationProperty
comment: ChEMBL protein targets summary
sub property of: subset_property

goslim drosophila
type: AnnotationProperty
comment: Drosophila GO slim
sub property of: subset_property

goslim euk cellular processes ribbon
type: AnnotationProperty
comment: GO ribbon for eukaroytic cellular processes
sub property of: subset_property

goslim flybase ribbon
type: AnnotationProperty
comment: Insecta GO ribbon slim
sub property of: subset_property

goslim generic
type: AnnotationProperty
comment: Generic GO slim
sub property of: subset_property

goslim metagenomics
type: AnnotationProperty
comment: Metagenomics GO slim
sub property of: subset_property

goslim mouse
type: AnnotationProperty
comment: Mouse GO slim
sub property of: subset_property

goslim pir
type: AnnotationProperty
comment: PIR GO slim
sub property of: subset_property

goslim plant
type: AnnotationProperty
comment: Plant GO slim
sub property of: subset_property

goslim plant ribbon
type: AnnotationProperty
comment: Plant GO ribbon
sub property of: subset_property

goslim pombe
type: AnnotationProperty
comment: Fission yeast GO slim
sub property of: subset_property

goslim prokaryote
type: AnnotationProperty
comment: GO subset for prokaryotes
sub property of: subset_property

goslim prokaryote ribbon
type: AnnotationProperty
comment: Prokaryote GO ribbon slim
sub property of: subset_property

goslim synapse
type: AnnotationProperty
comment: synapse GO slim
sub property of: subset_property

goslim virus
type: AnnotationProperty
comment: GO subset for viruses
sub property of: subset_property

goslim yeast
type: AnnotationProperty
comment: Yeast GO slim
sub property of: subset_property

label approved by the SynGO project
type: AnnotationProperty
sub property of: synonym_type_property

Systematic synonym
type: AnnotationProperty
has_scope: has_exact_synonym
sub property of: synonym_type_property

subset_property
type: AnnotationProperty

synonym_type_property
type: AnnotationProperty

consider
type: AnnotationProperty

created by
type: AnnotationProperty

creation date
type: AnnotationProperty

has_alternative_id
type: AnnotationProperty

has_broad_synonym
type: AnnotationProperty

database_cross_reference
type: AnnotationProperty

has_exact_synonym
type: AnnotationProperty

has_narrow_synonym
type: AnnotationProperty

has_obo_format_version
type: AnnotationProperty

has_obo_namespace
type: AnnotationProperty

has_related_synonym
type: AnnotationProperty

has_scope
type: AnnotationProperty

has_synonym_type
type: AnnotationProperty

id
type: AnnotationProperty

in_subset
type: AnnotationProperty

shorthand
type: AnnotationProperty

part of
type: ObjectProperty
inverse of: has part
type: TransitiveProperty
database_cross_reference: BFO:0000050
has_obo_namespace: external
id: part_of
shorthand: part_of

has part
type: ObjectProperty
type: TransitiveProperty
database_cross_reference: BFO:0000051
has_obo_namespace: external
id: has_part
shorthand: has_part

occurs in
type: ObjectProperty
property chain axiom: part of
database_cross_reference: BFO:0000066
has_obo_namespace: external
id: occurs_in
shorthand: occurs_in

starts during
type: ObjectProperty
database_cross_reference: RO:0002091
has_obo_namespace: external
id: starts_during
shorthand: starts_during

happens during
type: ObjectProperty
sub property of: ends during
type: TransitiveProperty
database_cross_reference: RO:0002092
has_obo_namespace: external
id: happens_during
shorthand: happens_during

ends during
type: ObjectProperty
database_cross_reference: RO:0002093
has_obo_namespace: external
id: ends_during
shorthand: ends_during

regulates
type: ObjectProperty
type: TransitiveProperty
database_cross_reference: RO:0002211
has_obo_namespace: external
id: regulates
shorthand: regulates

negatively regulates
type: ObjectProperty
sub property of: regulates
database_cross_reference: RO:0002212
has_obo_namespace: external
id: negatively_regulates
shorthand: negatively_regulates

positively regulates
type: ObjectProperty
sub property of: regulates
property chain axiom: negatively regulates
database_cross_reference: RO:0002213
has_obo_namespace: external
id: positively_regulates
shorthand: positively_regulates

nucleotide binding
type: Class
subclass of: binding
definition: Binding to a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
has_obo_namespace: molecular_function
id: GO:0000166
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: nucleotide binding
annotated property: definition
annotated target: Binding to a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0198547684

molecular_function
type: Class
definition: A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.
has_alternative_id: GO:0005554
has_exact_synonym: molecular function
has_obo_namespace: molecular_function
id: GO:0003674
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast
comment: Note that, in addition to forming the root of the molecular function ontology, this term is recommended for the annotation of gene products whose molecular function is unknown. When this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this. Despite its name, this is not a type of 'function' in the sense typically defined by upper ontologies such as Basic Formal Ontology (BFO). It is instead a BFO:process carried out by a single gene product or complex.

Axiom
annotated source: molecular_function
annotated property: definition
annotated target: A molecular process that can be carried out by the action of a single macromolecular machine, usually via direct physical interactions with other molecular entities. Function in this sense denotes an action, or activity, that a gene product (or a complex) performs.
database_cross_reference: GOC:pdt

nucleic acid binding
type: Class
subclass of: binding
definition: Binding to a nucleic acid.
has_alternative_id: GO:0000496
has_narrow_synonym: base pairing
has_obo_namespace: molecular_function
id: GO:0003676
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: nucleic acid binding
annotated property: definition
annotated target: Binding to a nucleic acid.
database_cross_reference: GOC:jl

DNA binding
type: Class
subclass of: nucleic acid binding
definition: Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
has_alternative_id: GO:0043566
has_narrow_synonym: plasmid binding
has_obo_namespace: molecular_function
has_related_synonym: microtubule/chromatin interaction
has_related_synonym: structure specific DNA binding
has_related_synonym: structure-specific DNA binding
id: GO:0003677
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: DNA binding
annotated property: definition
annotated target: Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
database_cross_reference: GOC:dph
database_cross_reference: GOC:jl
database_cross_reference: GOC:tb
database_cross_reference: GOC:vw

chromatin binding
type: Class
subclass of: binding
definition: Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
has_narrow_synonym: lamin/chromatin binding
has_narrow_synonym: microtubule/chromatin interaction
has_narrow_synonym: nuclear membrane vesicle binding to chromatin
has_obo_namespace: molecular_function
id: GO:0003682
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast

Axiom
annotated source: chromatin binding
annotated property: definition
annotated target: Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
database_cross_reference: GOC:jl
database_cross_reference: ISBN:0198506732
database_cross_reference: PMID:20404130

DNA-binding transcription factor activity
type: Class
subclass of: transcription regulator activity
subclass of: Restriction
  on property: part of
  some values from: biological_process
subclass of: Restriction
  on property: has part
  some values from: DNA binding
definition: A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.
term tracker item: https://github.com/geneontology/go-ontology/issues/15704
term tracker item: https://github.com/geneontology/go-ontology/issues/16534
term tracker item: https://github.com/geneontology/go-ontology/issues/20253
created by: krc
creation date: 2010-10-21T04:37:54Z
has_alternative_id: GO:0000130
has_alternative_id: GO:0001071
has_alternative_id: GO:0001130
has_alternative_id: GO:0001131
has_alternative_id: GO:0001151
has_alternative_id: GO:0001199
has_alternative_id: GO:0001204
has_broad_synonym: nucleic acid binding transcription factor activity
has_broad_synonym: transcription factor activity
database_cross_reference: Reactome:R-HSA-163666
has_exact_synonym: DNA binding transcription factor activity
has_exact_synonym: gene-specific transcription factor activity
has_exact_synonym: sequence-specific DNA binding transcription factor activity
has_narrow_synonym: bacterial-type DNA binding transcription factor activity
has_narrow_synonym: bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding transcription factor activity
has_narrow_synonym: bacterial-type RNA polymerase transcription enhancer sequence-specific DNA binding transcription factor activity
has_narrow_synonym: bacterial-type RNA polymerase transcription factor activity, metal ion regulated sequence-specific DNA binding
has_narrow_synonym: bacterial-type RNA polymerase transcription factor activity, sequence-specific DNA binding
has_narrow_synonym: metal ion regulated sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity
has_narrow_synonym: metal ion regulated sequence-specific DNA binding transcription factor activity
has_narrow_synonym: sequence-specific DNA binding bacterial-type RNA polymerase transcription factor activity
has_narrow_synonym: transcription factor activity, bacterial-type RNA polymerase core promoter proximal region sequence-specific binding
has_narrow_synonym: transcription factor activity, bacterial-type RNA polymerase proximal promoter sequence-specific DNA binding
has_narrow_synonym: transcription factor activity, bacterial-type RNA polymerase transcription enhancer sequence-specific binding
has_narrow_synonym: transcription factor activity, metal ion regulated sequence-specific DNA binding
has_obo_namespace: molecular_function
id: GO:0003700
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim yeast
comment: Usage guidance: Most DNA-binding transcription factors do not have enzymatic activity. The presence of specific DNA-binding domains known to be present in DNA-binding transcription factors (HOX, GATA etc) should be used to help decide whether a protein is a DNA binding transcription factor or a coregulator. If a protein has an enzymatic activity (for example, ubiquitin ligase, histone acetyl transferase) and no known DNA binding domain, consider annotating to GO:0003712 transcription coregulator activity. Special care should be taken with proteins containing zinc fingers, Myb/SANT and ARID domains, since only a subset of proteins containing these domains directly and selectively bind to regulatory DNA motifs in cis-regulatory regions.

Axiom
annotated source: DNA-binding transcription factor activity
annotated property: definition
annotated target: A transcription regulator activity that modulates transcription of gene sets via selective and non-covalent binding to a specific double-stranded genomic DNA sequence (sometimes referred to as a motif) within a cis-regulatory region. Regulatory regions include promoters (proximal and distal) and enhancers. Genes are transcriptional units, and include bacterial operons.
database_cross_reference: GOC:txnOH-2018

Formation of ChREBP:MLX heterodimer
type: Axiom
annotated source: DNA-binding transcription factor activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-163666

RNA binding
type: Class
subclass of: nucleic acid binding
definition: Binding to an RNA molecule or a portion thereof.
has_alternative_id: GO:0000498
has_alternative_id: GO:0044822
database_cross_reference: Reactome:R-HSA-203922
has_narrow_synonym: base pairing with RNA
has_obo_namespace: molecular_function
has_related_synonym: poly(A) RNA binding
has_related_synonym: poly(A)-RNA binding
has_related_synonym: poly-A RNA binding
id: GO:0003723
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: RNA binding
annotated property: definition
annotated target: Binding to an RNA molecule or a portion thereof.
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah

Exportin-5 recognizes 3' overhang of pre-miRNA
type: Axiom
annotated source: RNA binding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-203922

cytoskeletal motor activity
type: Class
subclass of: molecular_function
definition: Generation of force resulting in movement, for example along a microfilament or microtubule, or in torque resulting in membrane scission or rotation of a flagellum. The energy required is obtained either from the hydrolysis of a nucleoside triphosphate or by an electrochemical proton gradient (proton-motive force).
term tracker item: https://github.com/geneontology/go-ontology/issues/19590
term tracker item: https://github.com/geneontology/go-ontology/issues/21756
has_broad_synonym: motor activity
database_cross_reference: Reactome:R-HSA-1861595
has_obo_namespace: molecular_function
id: GO:0003774
in_subset: goslim candida
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: cytoskeletal motor activity
annotated property: definition
annotated target: Generation of force resulting in movement, for example along a microfilament or microtubule, or in torque resulting in membrane scission or rotation of a flagellum. The energy required is obtained either from the hydrolysis of a nucleoside triphosphate or by an electrochemical proton gradient (proton-motive force).
database_cross_reference: GOC:mah
database_cross_reference: GOC:vw
database_cross_reference: PMID:11242086
database_cross_reference: PMID:29716949

Extension of pseudopodia by myosin-X in a PI3K dependent manner
type: Axiom
annotated source: cytoskeletal motor activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1861595

catalytic activity
type: Class
subclass of: molecular_function
definition: Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
database_cross_reference: Wikipedia:Enzyme
has_exact_synonym: enzyme activity
has_obo_namespace: molecular_function
id: GO:0003824
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote ribbon

Axiom
annotated source: catalytic activity
annotated property: definition
annotated target: Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
database_cross_reference: GOC:vw
database_cross_reference: ISBN:0198506732

Axiom
annotated source: catalytic activity
annotated property: has_exact_synonym
annotated target: enzyme activity
database_cross_reference: GOC:dph
database_cross_reference: GOC:tb

nuclease activity
type: Class
subclass of: catalytic activity
definition: Catalysis of the cleavage of ester linkages within nucleic acids.
term tracker item: https://github.com/geneontology/go-ontology/issues/24408
has_obo_namespace: molecular_function
id: GO:0004518
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim plant
in_subset: goslim yeast
comment: Most nucleases are classed as hydrolases, though a minority are classed as lyases.

Axiom
annotated source: nuclease activity
annotated property: definition
annotated target: Catalysis of the cleavage of ester linkages within nucleic acids.
database_cross_reference: ISBN:0198547684

signaling receptor binding
type: Class
subclass of: protein binding
definition: Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
has_broad_synonym: receptor binding
database_cross_reference: Wikipedia:Ligand_(biochemistry)
has_narrow_synonym: receptor ligand
has_obo_namespace: molecular_function
has_related_synonym: receptor-associated protein activity
id: GO:0005102
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim mouse
in_subset: goslim plant
comment: Where appropriate, also consider annotating to 'receptor agonist activity ; GO:0048018'.

Axiom
annotated source: signaling receptor binding
annotated property: definition
annotated target: Binding to one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
database_cross_reference: GOC:bf
database_cross_reference: GOC:ceb
database_cross_reference: ISBN:0198506732

structural molecule activity
type: Class
subclass of: molecular_function
definition: The action of a molecule that contributes to the structural integrity of a complex.
term tracker item: https://github.com/geneontology/go-ontology/issues/24130
has_obo_namespace: molecular_function
id: GO:0005198
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: structural molecule activity
annotated property: definition
annotated target: The action of a molecule that contributes to the structural integrity of a complex.
database_cross_reference: GOC:mah
database_cross_reference: GOC:vw

transporter activity
type: Class
subclass of: molecular_function
definition: Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, accross or in between cells.
term tracker item: https://github.com/geneontology/go-ontology/issues/27621
has_alternative_id: GO:0005478
has_obo_namespace: molecular_function
has_related_synonym: carrier
id: GO:0005215
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
comment: Some transporters, such as certain members of the SLC family, are referred to as 'carriers'; however GO uses carrier with a different meaning: a carrier binds to and transports the substance (see GO:0140104 molecular carrier activity), whereas a transporter forms some pore that allows the passing of molecules.

Axiom
annotated source: transporter activity
annotated property: definition
annotated target: Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, accross or in between cells.
database_cross_reference: GOC:ai
database_cross_reference: GOC:dgf

binding
type: Class
subclass of: molecular_function
definition: The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule.
database_cross_reference: Wikipedia:Binding_(molecular)
has_narrow_synonym: ligand
has_obo_namespace: molecular_function
id: GO:0005488
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: binding
annotated property: definition
annotated target: The selective, non-covalent, often stoichiometric, interaction of a molecule with one or more specific sites on another molecule.
database_cross_reference: GOC:ceb
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0198506732

protein binding
type: Class
subclass of: binding
definition: Binding to a protein.
has_alternative_id: GO:0001948
has_alternative_id: GO:0045308
database_cross_reference: Reactome:R-HSA-9866132
has_exact_synonym: protein amino acid binding
has_narrow_synonym: glycoprotein binding
has_obo_namespace: molecular_function
id: GO:0005515
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote ribbon

Axiom
annotated source: protein binding
annotated property: definition
annotated target: Binding to a protein.
database_cross_reference: GOC:curators

Intermediate II binds CYC1, UQCRC1, UQCRC2, UQCRH
type: Axiom
annotated source: protein binding
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9866132

cellular_component
type: Class
definition: A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex).
term tracker item: https://github.com/geneontology/go-ontology/issues/17729
has_alternative_id: GO:0008372
database_cross_reference: NIF_Subcellular:sao1337158144
has_exact_synonym: cell or subcellular entity
has_exact_synonym: cellular component
has_obo_namespace: cellular_component
has_related_synonym: subcellular entity
id: GO:0005575
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast
comment: Note that, in addition to forming the root of the cellular component ontology, this term is recommended for the annotation of gene products whose cellular component is unknown. When this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.

Axiom
annotated source: cellular_component
annotated property: definition
annotated target: A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex).
database_cross_reference: GOC:pdt

Axiom
annotated source: cellular_component
annotated property: has_related_synonym
annotated target: subcellular entity
database_cross_reference: NIF_Subcellular:nlx_subcell_100315

extracellular region
type: Class
subclass of: cellular_component
definition: The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
database_cross_reference: Wikipedia:Extracellular
has_exact_synonym: extracellular
has_obo_namespace: cellular_component
id: GO:0005576
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast
comment: Note that this term is intended to annotate gene products that are not attached to the cell surface. For gene products from multicellular organisms which are secreted from a cell but retained within the organism (i.e. released into the interstitial fluid or blood), consider the cellular component term 'extracellular space ; GO:0005615'.

Axiom
annotated source: extracellular region
annotated property: definition
annotated target: The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
database_cross_reference: GOC:curators

cell wall
type: Class
subclass of: external encapsulating structure
definition: The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
term tracker item: https://github.com/geneontology/go-ontology/issues/21669
database_cross_reference: Wikipedia:Cell_wall
has_obo_namespace: cellular_component
id: GO:0005618
in_subset: gocheck do not annotate
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast
comment: Not to be used for manual annotation. Please choose a more specific term: for bacteria, annotate to GO:0009274; peptidoglycan-based cell wall, for plants: annotate to GO:0009505 ; plant-type cell wall, for fungi: GO:0009277 ; fungal-type cell wall, and for archae, use GO:0030115 S-layer (see PMID:31214995).

Axiom
annotated source: cell wall
annotated property: definition
annotated target: The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
database_cross_reference: GOC:giardia
database_cross_reference: ISBN:0198547684
database_cross_reference: PMID:15134259
database_cross_reference: Wikipedia:Microbial_cyst

intracellular anatomical structure
type: Class
subclass of: cellular_component
definition: A component of a cell contained within (but not including) the plasma membrane. In eukaryotes it includes the nucleus and cytoplasm.
term tracker item: https://github.com/geneontology/go-ontology/issues/17776
database_cross_reference: Wikipedia:Intracellular
has_exact_synonym: internal to cell
has_exact_synonym: intracellular
has_exact_synonym: protoplasm
has_obo_namespace: cellular_component
has_related_synonym: nucleocytoplasm
has_related_synonym: protoplast
id: GO:0005622
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim plant

Axiom
annotated source: intracellular anatomical structure
annotated property: definition
annotated target: A component of a cell contained within (but not including) the plasma membrane. In eukaryotes it includes the nucleus and cytoplasm.
database_cross_reference: ISBN:0198506732

Axiom
annotated source: intracellular anatomical structure
annotated property: has_related_synonym
annotated target: nucleocytoplasm
database_cross_reference: GOC:mah

Axiom
annotated source: intracellular anatomical structure
annotated property: has_related_synonym
annotated target: protoplast
database_cross_reference: GOC:mah

nucleus
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
database_cross_reference: NIF_Subcellular:sao1702920020
database_cross_reference: Wikipedia:Cell_nucleus
has_exact_synonym: cell nucleus
has_narrow_synonym: horsetail nucleus
has_obo_namespace: cellular_component
id: GO:0005634
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast

Axiom
annotated source: nucleus
annotated property: definition
annotated target: A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
database_cross_reference: GOC:curators

Axiom
annotated source: nucleus
annotated property: has_narrow_synonym
annotated target: horsetail nucleus
database_cross_reference: GOC:al
database_cross_reference: GOC:mah
database_cross_reference: GOC:vw
database_cross_reference: PMID:15030757

nuclear envelope
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: nucleus
definition: The double lipid bilayer that encloses the nucleus, separating its contents from the cytoplasm. It consists of an inner and outer nuclear membrane, with an intermembrane space (20-40 nm wide, also called the perinuclear space) between them. The envelope is supported by the nuclear lamina and contains nuclear pore complexes, which regulate molecular transport.
term tracker item: https://github.com/geneontology/go-ontology/issues/29832
has_alternative_id: GO:0005636
database_cross_reference: Wikipedia:Nuclear_envelope
has_obo_namespace: cellular_component
id: GO:0005635
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim plant

Axiom
annotated source: nuclear envelope
annotated property: definition
annotated target: The double lipid bilayer that encloses the nucleus, separating its contents from the cytoplasm. It consists of an inner and outer nuclear membrane, with an intermembrane space (20-40 nm wide, also called the perinuclear space) between them. The envelope is supported by the nuclear lamina and contains nuclear pore complexes, which regulate molecular transport.
database_cross_reference: ISBN:0198547684
database_cross_reference: PMID:16164970

nucleoplasm
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: nucleus
definition: That part of the nuclear content other than the chromosomes or the nucleolus.
database_cross_reference: NIF_Subcellular:sao661522542
database_cross_reference: Wikipedia:Nucleoplasm
has_obo_namespace: cellular_component
id: GO:0005654
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim plant

Axiom
annotated source: nucleoplasm
annotated property: definition
annotated target: That part of the nuclear content other than the chromosomes or the nucleolus.
database_cross_reference: GOC:ma
database_cross_reference: ISBN:0124325653

nucleolus
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: nucleus
definition: A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
database_cross_reference: NIF_Subcellular:sao1820400233
database_cross_reference: Wikipedia:Nucleolus
has_obo_namespace: cellular_component
id: GO:0005730
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast

Axiom
annotated source: nucleolus
annotated property: definition
annotated target: A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
database_cross_reference: ISBN:0198506732

cytoplasm
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
term tracker item: https://github.com/geneontology/go-ontology/issues/23023
database_cross_reference: Wikipedia:Cytoplasm
has_obo_namespace: cellular_component
id: GO:0005737
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: cytoplasm
annotated property: definition
annotated target: The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
database_cross_reference: ISBN:0198547684

mitochondrion
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
database_cross_reference: NIF_Subcellular:sao1860313010
database_cross_reference: Wikipedia:Mitochondrion
has_exact_synonym: mitochondria
has_obo_namespace: cellular_component
id: GO:0005739
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast
comment: Some anaerobic or microaerophilic organisms (e.g. Entamoeba histolytica, Giardia intestinalis and several Microsporidia species) do not have mitochondria, and contain mitochondrion-related organelles (MROs) instead, called mitosomes or hydrogenosomes, very likely derived from mitochondria. To annotate gene products located in these mitochondrial relics in species such as Entamoeba histolytica, Giardia intestinalis or others, please use GO:0032047 'mitosome' or GO:0042566 'hydrogenosome'. (See PMID:24316280 for a list of species currently known to contain mitochondrion-related organelles.)

Axiom
annotated source: mitochondrion
annotated property: definition
annotated target: A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
database_cross_reference: GOC:giardia
database_cross_reference: ISBN:0198506732

lysosome
type: Class
subclass of: vacuole
definition: A small lytic vacuole that has cell cycle-independent morphology found in most animal cells and that contains a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions.
database_cross_reference: NIF_Subcellular:sao585356902
database_cross_reference: Wikipedia:Lysosome
has_obo_namespace: cellular_component
id: GO:0005764
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim plant

Axiom
annotated source: lysosome
annotated property: definition
annotated target: A small lytic vacuole that has cell cycle-independent morphology found in most animal cells and that contains a variety of hydrolases, most of which have their maximal activities in the pH range 5-6. The contained enzymes display latency if properly isolated. About 40 different lysosomal hydrolases are known and lysosomes have a great variety of morphologies and functions.
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0198506732

endosome
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: A vacuole to which materials ingested by endocytosis are delivered.
database_cross_reference: NIF_Subcellular:sao1720343330
database_cross_reference: Wikipedia:Endosome
has_obo_namespace: cellular_component
id: GO:0005768
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: endosome
annotated property: definition
annotated target: A vacuole to which materials ingested by endocytosis are delivered.
database_cross_reference: ISBN:0198506732
database_cross_reference: PMID:19696797

vacuole
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.
database_cross_reference: Wikipedia:Vacuole
has_obo_namespace: cellular_component
has_related_synonym: vacuolar carboxypeptidase Y
id: GO:0005773
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast

Axiom
annotated source: vacuole
annotated property: definition
annotated target: A closed structure, found only in eukaryotic cells, that is completely surrounded by unit membrane and contains liquid material. Cells contain one or several vacuoles, that may have different functions from each other. Vacuoles have a diverse array of functions. They can act as a storage organelle for nutrients or waste products, as a degradative compartment, as a cost-effective way of increasing cell size, and as a homeostatic regulator controlling both turgor pressure and pH of the cytosol.
database_cross_reference: GOC:mtg_sensu
database_cross_reference: ISBN:0198506732

peroxisome
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.
has_alternative_id: GO:0019818
has_broad_synonym: peroxisome vesicle
database_cross_reference: NIF_Subcellular:sao499555322
database_cross_reference: Wikipedia:Peroxisome
has_obo_namespace: cellular_component
has_related_synonym: peroxisomal
id: GO:0005777
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast

Axiom
annotated source: peroxisome
annotated property: definition
annotated target: A small organelle enclosed by a single membrane, and found in most eukaryotic cells. Contains peroxidases and other enzymes involved in a variety of metabolic processes including free radical detoxification, lipid catabolism and biosynthesis, and hydrogen peroxide metabolism.
database_cross_reference: GOC:pm
database_cross_reference: PMID:9302272
database_cross_reference: UniProtKB-KW:KW-0576

endoplasmic reticulum
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
database_cross_reference: NIF_Subcellular:sao1036339110
database_cross_reference: Wikipedia:Endoplasmic_reticulum
has_exact_synonym: ER
has_obo_namespace: cellular_component
id: GO:0005783
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast

Axiom
annotated source: endoplasmic reticulum
annotated property: definition
annotated target: The irregular network of unit membranes, visible only by electron microscopy, that occurs in the cytoplasm of many eukaryotic cells. The membranes form a complex meshwork of tubular channels, which are often expanded into slitlike cavities called cisternae. The ER takes two forms, rough (or granular), with ribosomes adhering to the outer surface, and smooth (with no ribosomes attached).
database_cross_reference: ISBN:0198506732

Golgi apparatus
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: A membrane-bound cytoplasmic organelle of the endomembrane system that further processes the core oligosaccharides (e.g. N-glycans) added to proteins in the endoplasmic reticulum and packages them into membrane-bound vesicles. The Golgi apparatus operates at the intersection of the secretory, lysosomal, and endocytic pathways.
term tracker item: https://github.com/geneontology/go-ontology/issues/14798
has_broad_synonym: Golgi
database_cross_reference: NIF_Subcellular:sao451912436
database_cross_reference: Wikipedia:Golgi_apparatus
has_exact_synonym: Golgi complex
has_narrow_synonym: Golgi ribbon
has_obo_namespace: cellular_component
id: GO:0005794
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast
comment: Note that the Golgi apparatus can be located in various places in the cytoplasm. In plants and lower animal cells, the Golgi apparatus exists as many copies of discrete stacks dispersed throughout the cytoplasm, while the Golgi apparatus of interphase mammalian cells is a juxtanuclear, often pericentriolar reticulum, where the discrete Golgi stacks are stitched together to form a compact and interconnected ribbon, sometimes called the Golgi ribbon.

Axiom
annotated source: Golgi apparatus
annotated property: definition
annotated target: A membrane-bound cytoplasmic organelle of the endomembrane system that further processes the core oligosaccharides (e.g. N-glycans) added to proteins in the endoplasmic reticulum and packages them into membrane-bound vesicles. The Golgi apparatus operates at the intersection of the secretory, lysosomal, and endocytic pathways.
database_cross_reference: ISBN:0198506732
database_cross_reference: PMID:9695800

cytosol
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
definition: The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
database_cross_reference: NIF_Subcellular:sao101633890
database_cross_reference: Wikipedia:Cytosol
has_obo_namespace: cellular_component
id: GO:0005829
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim plant

Axiom
annotated source: cytosol
annotated property: definition
annotated target: The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
database_cross_reference: GOC:hjd
database_cross_reference: GOC:jl

ribosome
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.
term tracker item: https://github.com/geneontology/go-ontology/issues/17777
has_alternative_id: GO:0033279
database_cross_reference: NIF_Subcellular:sao1429207766
database_cross_reference: Wikipedia:Ribosome
has_narrow_synonym: free ribosome
has_narrow_synonym: membrane bound ribosome
has_obo_namespace: cellular_component
has_related_synonym: ribosomal RNA
id: GO:0005840
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: ribosome
annotated property: definition
annotated target: An intracellular organelle, about 200 A in diameter, consisting of RNA and protein. It is the site of protein biosynthesis resulting from translation of messenger RNA (mRNA). It consists of two subunits, one large and one small, each containing only protein and RNA. Both the ribosome and its subunits are characterized by their sedimentation coefficients, expressed in Svedberg units (symbol: S). Hence, the prokaryotic ribosome (70S) comprises a large (50S) subunit and a small (30S) subunit, while the eukaryotic ribosome (80S) comprises a large (60S) subunit and a small (40S) subunit. Two sites on the ribosomal large subunit are involved in translation, namely the aminoacyl site (A site) and peptidyl site (P site). Ribosomes from prokaryotes, eukaryotes, mitochondria, and chloroplasts have characteristically distinct ribosomal proteins.
database_cross_reference: ISBN:0198506732

Axiom
annotated source: ribosome
annotated property: has_narrow_synonym
annotated target: free ribosome
database_cross_reference: NIF_Subcellular:sao1139385046

Axiom
annotated source: ribosome
annotated property: has_narrow_synonym
annotated target: membrane bound ribosome
database_cross_reference: NIF_Subcellular:sao1291545653

cytoskeleton
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: A cellular structure that forms the internal framework of eukaryotic and prokaryotic cells. The cytoskeleton includes intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
database_cross_reference: Wikipedia:Cytoskeleton
has_obo_namespace: cellular_component
id: GO:0005856
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: cytoskeleton
annotated property: definition
annotated target: A cellular structure that forms the internal framework of eukaryotic and prokaryotic cells. The cytoskeleton includes intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
database_cross_reference: GOC:mah
database_cross_reference: PMID:16959967
database_cross_reference: PMID:27419875

plasma membrane
type: Class
subclass of: membrane
subclass of: Restriction
  on property: part of
  some values from: cellular_component
definition: The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
has_alternative_id: GO:0005887
has_alternative_id: GO:0005904
has_broad_synonym: juxtamembrane
database_cross_reference: NIF_Subcellular:sao1663586795
database_cross_reference: Wikipedia:Cell_membrane
has_exact_synonym: cell membrane
has_exact_synonym: cellular membrane
has_exact_synonym: cytoplasmic membrane
has_exact_synonym: plasmalemma
has_narrow_synonym: bacterial inner membrane
has_narrow_synonym: inner endospore membrane
has_narrow_synonym: integral component of plasma membrane
has_narrow_synonym: integral to plasma membrane
has_narrow_synonym: plasma membrane lipid bilayer
has_obo_namespace: cellular_component
id: GO:0005886
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: plasma membrane
annotated property: definition
annotated target: The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
database_cross_reference: ISBN:0716731363

Axiom
annotated source: plasma membrane
annotated property: has_exact_synonym
annotated target: cellular membrane
database_cross_reference: NIF_Subcellular:sao6433132645

Axiom
annotated source: plasma membrane
annotated property: has_narrow_synonym
annotated target: plasma membrane lipid bilayer
database_cross_reference: GOC:mah

carbohydrate metabolic process
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
term tracker item: https://github.com/geneontology/go-ontology/issues/22880
created by: jl
creation date: 2012-10-23T15:40:34Z
has_alternative_id: GO:0044261
has_alternative_id: GO:0044723
database_cross_reference: Wikipedia:Carbohydrate_metabolism
has_exact_synonym: carbohydrate metabolism
has_obo_namespace: biological_process
id: GO:0005975
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: carbohydrate metabolic process
annotated property: definition
annotated target: The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0198506732

generation of precursor metabolites and energy
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways resulting in the formation of precursor metabolites, substances from which energy is derived, and any process involved in the liberation of energy from these substances.
has_broad_synonym: energy pathways
has_obo_namespace: biological_process
has_related_synonym: intermediary metabolism
has_related_synonym: metabolic energy generation
id: GO:0006091
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: generation of precursor metabolites and energy
annotated property: definition
annotated target: The chemical reactions and pathways resulting in the formation of precursor metabolites, substances from which energy is derived, and any process involved in the liberation of energy from these substances.
database_cross_reference: GOC:jl

Axiom
annotated source: generation of precursor metabolites and energy
annotated property: has_related_synonym
annotated target: intermediary metabolism
database_cross_reference: GOC:mah

nucleobase-containing compound metabolic process
type: Class
subclass of: metabolic process
definition: Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
term tracker item: https://github.com/geneontology/go-ontology/issues/31498
has_alternative_id: GO:0055134
has_exact_synonym: cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolic process
has_exact_synonym: cellular nucleobase, nucleoside, nucleotide and nucleic acid metabolism
has_exact_synonym: nucleobase, nucleoside, nucleotide and nucleic acid metabolism
has_obo_namespace: biological_process
has_related_synonym: nucleobase, nucleoside and nucleotide metabolic process
has_related_synonym: nucleobase, nucleoside, nucleotide and nucleic acid metabolic process
id: GO:0006139
in_subset: gocheck do not annotate
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: nucleobase-containing compound metabolic process
annotated property: definition
annotated target: Any cellular metabolic process involving nucleobases, nucleosides, nucleotides and nucleic acids.
database_cross_reference: GOC:ai

Axiom
annotated source: nucleobase-containing compound metabolic process
annotated property: has_related_synonym
annotated target: nucleobase, nucleoside, nucleotide and nucleic acid metabolic process
database_cross_reference: GOC:dph
database_cross_reference: GOC:tb

DNA metabolic process
type: Class
subclass of: nucleobase-containing compound metabolic process
definition: Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
has_alternative_id: GO:0055132
has_exact_synonym: DNA metabolism
has_exact_synonym: cellular DNA metabolism
has_obo_namespace: biological_process
id: GO:0006259
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote ribbon

Axiom
annotated source: DNA metabolic process
annotated property: definition
annotated target: Any cellular metabolic process involving deoxyribonucleic acid. This is one of the two main types of nucleic acid, consisting of a long, unbranched macromolecule formed from one, or more commonly, two, strands of linked deoxyribonucleotides.
database_cross_reference: ISBN:0198506732

translation
type: Class
subclass of: biosynthetic process
subclass of: protein metabolic process
subclass of: Restriction
  on property: part of
  some values from: biosynthetic process
subclass of: Restriction
  on property: part of
  some values from: protein metabolic process
subclass of: Restriction
  on property: has part
  some values from: biosynthetic process
subclass of: Restriction
  on property: has part
  some values from: cellular component organization
subclass of: Restriction
  on property: has part
  some values from: transferase activity
definition: The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
has_alternative_id: GO:0006416
has_alternative_id: GO:0006453
has_alternative_id: GO:0043037
database_cross_reference: Reactome:R-HSA-72766
database_cross_reference: Wikipedia:Translation_(genetics)
has_exact_synonym: protein translation
has_obo_namespace: biological_process
id: GO:0006412
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: translation
annotated property: definition
annotated target: The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
database_cross_reference: GOC:curators

Translation
type: Axiom
annotated source: translation
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-72766

lipid metabolic process
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
database_cross_reference: Reactome:R-HSA-556833
database_cross_reference: Wikipedia:Lipid_metabolism
has_exact_synonym: lipid metabolism
has_obo_namespace: biological_process
id: GO:0006629
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim pombe
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: lipid metabolic process
annotated property: definition
annotated target: The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
database_cross_reference: GOC:ma

Metabolism of lipids
type: Axiom
annotated source: lipid metabolic process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-556833

transport
type: Class
subclass of: biological_process
definition: The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or a transporter complex, a pore or a motor protein.
term tracker item: https://github.com/geneontology/go-ontology/issues/20292
created by: jl
creation date: 2012-12-13T16:25:32Z
has_alternative_id: GO:0015457
has_alternative_id: GO:0015460
has_alternative_id: GO:0044765
database_cross_reference: Reactome:R-HSA-382551
has_obo_namespace: biological_process
has_related_synonym: single-organism transport
id: GO:0006810
in_subset: gocheck do not annotate
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
comment: Note that this term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term, for e.g. to transmembrane transport, to microtubule-based transport or to vesicle-mediated transport.

Axiom
annotated source: transport
annotated property: definition
annotated target: The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter or a transporter complex, a pore or a motor protein.
database_cross_reference: GOC:dos
database_cross_reference: GOC:dph
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah

Transport of small molecules
type: Axiom
annotated source: transport
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-382551

response to stress
type: Class
subclass of: biological_process
definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
term tracker item: https://github.com/geneontology/go-ontology/issues/26810
has_obo_namespace: biological_process
has_related_synonym: response to abiotic stress
has_related_synonym: response to biotic stress
id: GO:0006950
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: response to stress
annotated property: definition
annotated target: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a disturbance in organismal or cellular homeostasis, usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
database_cross_reference: GOC:mah

cell cycle
type: Class
subclass of: cellular process
definition: The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
database_cross_reference: Reactome:R-HSA-1640170
database_cross_reference: Wikipedia:Cell_cycle
has_exact_synonym: cell-division cycle
has_obo_namespace: biological_process
id: GO:0007049
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: cell cycle
annotated property: definition
annotated target: The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
database_cross_reference: GOC:curators
database_cross_reference: GOC:mtg_cell_cycle

Cell Cycle
type: Axiom
annotated source: cell cycle
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1640170

cell communication
type: Class
subclass of: cellular process
definition: Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment.
database_cross_reference: Wikipedia:Cell_signaling
has_obo_namespace: biological_process
id: GO:0007154
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: cell communication
annotated property: definition
annotated target: Any process that mediates interactions between a cell and its surroundings. Encompasses interactions such as signaling or attachment between one cell and another cell, between a cell and an extracellular matrix, or between a cell and any other aspect of its environment.
database_cross_reference: GOC:mah

signal transduction
type: Class
subclass of: cellular process
subclass of: Restriction
  on property: part of
  some values from: cell communication
subclass of: Restriction
  on property: regulates
  some values from: cellular process
definition: The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
has_alternative_id: GO:0023014
has_alternative_id: GO:0023015
has_alternative_id: GO:0023016
has_alternative_id: GO:0023033
has_alternative_id: GO:0023045
database_cross_reference: Reactome:R-HSA-212718
database_cross_reference: Wikipedia:Signal_transduction
has_narrow_synonym: signaling cascade
has_narrow_synonym: signalling cascade
has_obo_namespace: biological_process
has_related_synonym: signaling pathway
has_related_synonym: signalling pathway
id: GO:0007165
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon
comment: Note that signal transduction is defined broadly to include a ligand interacting with a receptor, downstream signaling steps and a response being triggered. A change in form of the signal in every step is not necessary. Note that in many cases the end of this process is regulation of the initiation of transcription. Note that specific transcription factors may be annotated to this term, but core/general transcription machinery such as RNA polymerase should not.

Axiom
annotated source: signal transduction
annotated property: definition
annotated target: The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
database_cross_reference: GOC:curators
database_cross_reference: GOC:mtg_signaling_feb11

EGFR interacts with phospholipase C-gamma
type: Axiom
annotated source: signal transduction
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-212718

cell-cell signaling
type: Class
subclass of: cell communication
subclass of: Restriction
  on property: regulates
  some values from: biological_process
definition: Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions.
has_exact_synonym: cell-cell signalling
has_obo_namespace: biological_process
id: GO:0007267
in_subset: goslim chembl
in_subset: goslim plant

Axiom
annotated source: cell-cell signaling
annotated property: definition
annotated target: Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions.
database_cross_reference: GOC:dos
database_cross_reference: GOC:mah

multicellular organism development
type: Class
subclass of: anatomical structure development
definition: The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
term tracker item: https://github.com/geneontology/go-ontology/issues/21234
has_obo_namespace: biological_process
id: GO:0007275
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim plant
comment: Note that this term was 'developmental process'.

Axiom
annotated source: multicellular organism development
annotated property: definition
annotated target: The biological process whose specific outcome is the progression of a multicellular organism over time from an initial condition (e.g. a zygote or a young adult) to a later condition (e.g. a multicellular animal or an aged adult).
database_cross_reference: GOC:dph
database_cross_reference: GOC:ems
database_cross_reference: GOC:isa_complete
database_cross_reference: GOC:tb

circadian rhythm
type: Class
subclass of: biological_process
definition: Any biological process in an organism that recurs with a regularity of approximately 24 hours.
has_alternative_id: GO:0050895
database_cross_reference: Reactome:R-HSA-9909396
database_cross_reference: Wikipedia:Circadian_rhythm
has_exact_synonym: circadian process
has_obo_namespace: biological_process
has_related_synonym: circadian response
has_related_synonym: response to circadian rhythm
id: GO:0007623
in_subset: goslim drosophila
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: circadian rhythm
annotated property: definition
annotated target: Any biological process in an organism that recurs with a regularity of approximately 24 hours.
database_cross_reference: GOC:bf
database_cross_reference: GOC:curators

Circadian clock
type: Axiom
annotated source: circadian rhythm
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9909396

translation factor activity, RNA binding
type: Class
subclass of: molecular_function
subclass of: Restriction
  on property: part of
  some values from: translation
subclass of: Restriction
  on property: has part
  some values from: RNA binding
definition: Functions during translation by binding to RNA during polypeptide synthesis at the ribosome.
has_broad_synonym: translation factor activity, nucleic acid binding
has_obo_namespace: molecular_function
id: GO:0008135
in_subset: goslim chembl
in_subset: goslim plant
in_subset: goslim yeast

Axiom
annotated source: translation factor activity, RNA binding
annotated property: definition
annotated target: Functions during translation by binding to RNA during polypeptide synthesis at the ribosome.
database_cross_reference: GOC:ai
database_cross_reference: GOC:vw

Axiom
annotated source: translation factor activity, RNA binding
annotated property: has_broad_synonym
annotated target: translation factor activity, nucleic acid binding
database_cross_reference: GOC:mah

biological_process
type: Class
definition: A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.
term tracker item: https://github.com/geneontology/go-ontology/issues/24968
created by: jl
creation date: 2012-09-19T15:05:24Z
has_alternative_id: GO:0000004
has_alternative_id: GO:0007582
has_alternative_id: GO:0044699
database_cross_reference: Wikipedia:Biological_process
has_exact_synonym: biological process
has_exact_synonym: physiological process
has_obo_namespace: biological_process
has_related_synonym: single organism process
has_related_synonym: single-organism process
id: GO:0008150
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim pombe
in_subset: goslim yeast
comment: Note that, in addition to forming the root of the biological process ontology, this term is recommended for the annotation of gene products whose biological process is unknown. When this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code 'no data' (ND), is used to indicate this.

Axiom
annotated source: biological_process
annotated property: definition
annotated target: A biological process is the execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module. A biological process is accomplished by a particular set of molecular functions carried out by specific gene products (or macromolecular complexes), often in a highly regulated manner and in a particular temporal sequence.
database_cross_reference: GOC:pdt

metabolic process
type: Class
subclass of: cellular process
definition: A cellular process consisting of the biochemical pathways by which a living organism transforms chemical substances. This includes including anabolism (biosynthetic process) and catabolism (catabolic process). Metabolic processes includes the transformation of small molecules, as well macromolecular processes such as DNA repair and replication, protein synthesis and degradation.
term tracker item: https://github.com/geneontology/go-ontology/issues/26424
term tracker item: https://github.com/geneontology/go-ontology/issues/28932
created by: jl
creation date: 2012-10-17T15:46:40Z
has_alternative_id: GO:0044236
has_alternative_id: GO:0044710
database_cross_reference: Reactome:R-HSA-1430728
database_cross_reference: Wikipedia:Metabolism
has_exact_synonym: metabolism
has_obo_namespace: biological_process
id: GO:0008152
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote ribbon
comment: Note that metabolic processes do not include single functions or processes such as protein-protein interactions, protein-nucleic acids, nor receptor-ligand interactions.

Axiom
annotated source: metabolic process
annotated property: definition
annotated target: A cellular process consisting of the biochemical pathways by which a living organism transforms chemical substances. This includes including anabolism (biosynthetic process) and catabolism (catabolic process). Metabolic processes includes the transformation of small molecules, as well macromolecular processes such as DNA repair and replication, protein synthesis and degradation.
database_cross_reference: GOC:curators
database_cross_reference: ISBN:0198547684

Metabolism
type: Axiom
annotated source: metabolic process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1430728

lipid binding
type: Class
subclass of: binding
definition: Binding to a lipid.
has_obo_namespace: molecular_function
id: GO:0008289
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
in_subset: goslim yeast

Axiom
annotated source: lipid binding
annotated property: definition
annotated target: Binding to a lipid.
database_cross_reference: GOC:ai

catabolic process
type: Class
subclass of: metabolic process
definition: A cellular process consisting of the biochemical pathways by which a living organism breaks down substances. This includes the breakdown of carbon compounds with the liberation of energy for use by the cell or organism.
term tracker item: https://github.com/geneontology/go-ontology/issues/28921
term tracker item: https://github.com/geneontology/go-ontology/issues/28932
term tracker item: https://github.com/geneontology/go-ontology/issues/29627
created by: jl
creation date: 2012-10-17T15:52:35Z
has_alternative_id: GO:0044243
has_alternative_id: GO:0044712
database_cross_reference: Wikipedia:Catabolism
has_exact_synonym: breakdown of chemical
has_exact_synonym: breakdown of molecule
has_exact_synonym: breakdown of substance
has_exact_synonym: catabolism
has_exact_synonym: cellular breakdown
has_exact_synonym: cellular catabolism
has_exact_synonym: cellular degradation
has_exact_synonym: degradation
has_obo_namespace: biological_process
id: GO:0009056
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: catabolic process
annotated property: definition
annotated target: A cellular process consisting of the biochemical pathways by which a living organism breaks down substances. This includes the breakdown of carbon compounds with the liberation of energy for use by the cell or organism.
database_cross_reference: ISBN:0198547684

biosynthetic process
type: Class
subclass of: metabolic process
definition: A cellular process consisting of the biochemical pathways by which a living organism synthesizes chemical substances. This typically represents the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
term tracker item: https://github.com/geneontology/go-ontology/issues/28932
created by: jl
creation date: 2012-10-17T15:52:18Z
has_alternative_id: GO:0044274
has_alternative_id: GO:0044711
has_broad_synonym: formation
database_cross_reference: Wikipedia:Anabolism
has_exact_synonym: anabolism
has_exact_synonym: biosynthesis
has_exact_synonym: synthesis
has_narrow_synonym: multicellular organismal biosynthetic process
has_obo_namespace: biological_process
has_related_synonym: single-organism biosynthetic process
id: GO:0009058
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: biosynthetic process
annotated property: definition
annotated target: A cellular process consisting of the biochemical pathways by which a living organism synthesizes chemical substances. This typically represents the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
database_cross_reference: GOC:curators
database_cross_reference: ISBN:0198547684

response to light stimulus
type: Class
subclass of: response to abiotic stimulus
definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light.
has_obo_namespace: biological_process
id: GO:0009416
in_subset: goslim plant

Axiom
annotated source: response to light stimulus
annotated property: definition
annotated target: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a light stimulus, electromagnetic radiation of wavelengths classified as infrared, visible or ultraviolet light.
database_cross_reference: GOC:curators
database_cross_reference: ISBN:0582227089

chloroplast
type: Class
subclass of: plastid
definition: A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
database_cross_reference: Wikipedia:Chloroplast
has_obo_namespace: cellular_component
id: GO:0009507
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: chloroplast
annotated property: definition
annotated target: A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
database_cross_reference: ISBN:0471245208

plastid
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: cytoplasm
subclass of: Restriction
  on property: has part
  some values from: membrane
definition: Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.
database_cross_reference: Wikipedia:Plastid
has_obo_namespace: cellular_component
id: GO:0009536
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: plastid
annotated property: definition
annotated target: Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.
database_cross_reference: GOC:jl
database_cross_reference: ISBN:0198547684

thylakoid
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: intracellular anatomical structure
definition: A membranous cellular structure that bears the photosynthetic pigments in plants, algae, and cyanobacteria. In cyanobacteria thylakoids are of various shapes and are attached to, or continuous with, the plasma membrane. In eukaryotes they are flattened, membrane-bounded disk-like structures located in the chloroplasts; in the chloroplasts of higher plants the thylakoids form dense stacks called grana. Isolated thylakoid preparations can carry out photosynthetic electron transport and the associated phosphorylation.
term tracker item: https://github.com/geneontology/go-ontology/issues/13958
database_cross_reference: Wikipedia:Thylakoid
has_obo_namespace: cellular_component
has_related_synonym: photosynthetic membrane
id: GO:0009579
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon
comment: A thylakoid is not considered an organelle, but some thylakoids are part of organelles.

Axiom
annotated source: thylakoid
annotated property: definition
annotated target: A membranous cellular structure that bears the photosynthetic pigments in plants, algae, and cyanobacteria. In cyanobacteria thylakoids are of various shapes and are attached to, or continuous with, the plasma membrane. In eukaryotes they are flattened, membrane-bounded disk-like structures located in the chloroplasts; in the chloroplasts of higher plants the thylakoids form dense stacks called grana. Isolated thylakoid preparations can carry out photosynthetic electron transport and the associated phosphorylation.
database_cross_reference: GOC:ds
database_cross_reference: GOC:mtg_sensu
database_cross_reference: ISBN:0198506732

response to external stimulus
type: Class
subclass of: biological_process
definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus.
has_exact_synonym: response to environmental stimulus
has_obo_namespace: biological_process
id: GO:0009605
in_subset: gocheck do not annotate
in_subset: goslim drosophila
in_subset: goslim plant
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.

Axiom
annotated source: response to external stimulus
annotated property: definition
annotated target: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an external stimulus.
database_cross_reference: GOC:hb

tropism
type: Class
subclass of: response to external stimulus
definition: The movement of an organism, or part of an organism, in response to an external source of stimulus, usually toward or away from it.
database_cross_reference: Wikipedia:Tropism
has_obo_namespace: biological_process
id: GO:0009606
in_subset: goslim plant

Axiom
annotated source: tropism
annotated property: definition
annotated target: The movement of an organism, or part of an organism, in response to an external source of stimulus, usually toward or away from it.
database_cross_reference: GOC:curators
database_cross_reference: ISBN:0877795088

response to biotic stimulus
type: Class
subclass of: biological_process
definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism.
has_narrow_synonym: response to biotic stress
has_obo_namespace: biological_process
id: GO:0009607
in_subset: gocheck do not annotate
in_subset: goslim metagenomics
in_subset: goslim plant
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.

Axiom
annotated source: response to biotic stimulus
annotated property: definition
annotated target: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a biotic stimulus, a stimulus caused or produced by a living organism.
database_cross_reference: GOC:hb

response to abiotic stimulus
type: Class
subclass of: biological_process
definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus.
term tracker item: https://github.com/geneontology/go-ontology/issues/16572
has_narrow_synonym: response to abiotic stress
has_obo_namespace: biological_process
id: GO:0009628
in_subset: gocheck do not annotate
in_subset: goslim metagenomics
in_subset: goslim plant
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.

Axiom
annotated source: response to abiotic stimulus
annotated property: definition
annotated target: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an abiotic (not derived from living organisms) stimulus.
database_cross_reference: GOC:hb

response to endogenous stimulus
type: Class
subclass of: biological_process
definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus arising within the organism.
has_obo_namespace: biological_process
id: GO:0009719
in_subset: gocheck do not annotate
in_subset: goslim plant
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.

Axiom
annotated source: response to endogenous stimulus
annotated property: definition
annotated target: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus arising within the organism.
database_cross_reference: GOC:sm

embryo development
type: Class
subclass of: multicellular organism development
definition: The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.
has_alternative_id: GO:0009795
has_broad_synonym: embryogenesis and morphogenesis
database_cross_reference: Reactome:R-HSA-5619507
database_cross_reference: Wikipedia:Embryogenesis
has_exact_synonym: embryogenesis
has_exact_synonym: embryonal development
has_obo_namespace: biological_process
id: GO:0009790
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim plant

Axiom
annotated source: embryo development
annotated property: definition
annotated target: The process whose specific outcome is the progression of an embryo from its formation until the end of its embryonic life stage. The end of the embryonic stage is organism-specific. For example, for mammals, the process would begin with zygote formation and end with birth. For insects, the process would begin at zygote formation and end with larval hatching. For plant zygotic embryos, this would be from zygote formation to the end of seed dormancy. For plant vegetative embryos, this would be from the initial determination of the cell or group of cells to form an embryo until the point when the embryo becomes independent of the parent plant.
database_cross_reference: GOC:curators
database_cross_reference: GOC:isa_complete
database_cross_reference: GOC:mtg_sensu

Activation of HOX genes during differentiation
type: Axiom
annotated source: embryo development
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5619507

post-embryonic development
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: part of
  some values from: multicellular organism development
definition: The process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure. See embryonic development.
has_obo_namespace: biological_process
id: GO:0009791
in_subset: goslim plant

Axiom
annotated source: post-embryonic development
annotated property: definition
annotated target: The process whose specific outcome is the progression of the organism over time, from the completion of embryonic development to the mature structure. See embryonic development.
database_cross_reference: GOC:curators

fruit ripening
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: part of
  some values from: multicellular organism development
subclass of: Restriction
  on property: part of
  some values from: reproductive process
definition: An developmental maturation process that has as participant a fruit. Ripening causes changes in one or more characteristics of a fruit (color, aroma, flavor, texture, hardness, cell wall structure) and may make it more attractive to animals and aid in seed dispersal.
database_cross_reference: Wikipedia:Ripening
has_obo_namespace: biological_process
has_related_synonym: fruit maturation
has_related_synonym: fruit senescence
id: GO:0009835
in_subset: goslim plant

Axiom
annotated source: fruit ripening
annotated property: definition
annotated target: An developmental maturation process that has as participant a fruit. Ripening causes changes in one or more characteristics of a fruit (color, aroma, flavor, texture, hardness, cell wall structure) and may make it more attractive to animals and aid in seed dispersal.
database_cross_reference: GOC:lr

Axiom
annotated source: fruit ripening
annotated property: has_related_synonym
annotated target: fruit maturation
database_cross_reference: GOC:PO_curators

Axiom
annotated source: fruit ripening
annotated property: has_related_synonym
annotated target: fruit senescence
database_cross_reference: GOC:PO_curators

abscission
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: part of
  some values from: multicellular organism development
definition: The controlled shedding of a body part.
database_cross_reference: Wikipedia:Abscission
has_obo_namespace: biological_process
id: GO:0009838
in_subset: goslim plant

Axiom
annotated source: abscission
annotated property: definition
annotated target: The controlled shedding of a body part.
database_cross_reference: ISBN:0140514031

pollination
type: Class
subclass of: reproductive process
subclass of: Restriction
  on property: part of
  some values from: biological_process
definition: The cascade of biological processes occurring in plants beginning when the pollen lands on the female reproductive organs of a plant and continuing up to, but not including, fertilization, as defined by sperm-egg cell fusion.
database_cross_reference: Wikipedia:Pollination
has_obo_namespace: biological_process
id: GO:0009856
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: pollination
annotated property: definition
annotated target: The cascade of biological processes occurring in plants beginning when the pollen lands on the female reproductive organs of a plant and continuing up to, but not including, fertilization, as defined by sperm-egg cell fusion.
database_cross_reference: GOC:tb
database_cross_reference: PMID:10973091

flower development
type: Class
subclass of: post-embryonic development
subclass of: reproductive process
subclass of: anatomical structure development
definition: The process whose specific outcome is the progression of the flower over time, from its formation to the mature structure. The flower is the reproductive structure in a plant, and its development begins with the transition of the vegetative or inflorescence meristem into a floral meristem.
has_alternative_id: GO:0048409
has_obo_namespace: biological_process
id: GO:0009908
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: flower development
annotated property: definition
annotated target: The process whose specific outcome is the progression of the flower over time, from its formation to the mature structure. The flower is the reproductive structure in a plant, and its development begins with the transition of the vegetative or inflorescence meristem into a floral meristem.
database_cross_reference: GOC:tb
database_cross_reference: ISBN:0879015322

cellular process
type: Class
subclass of: biological_process
definition: Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.
created by: jl
creation date: 2012-12-11T16:56:55Z
has_alternative_id: GO:0008151
has_alternative_id: GO:0044763
has_alternative_id: GO:0050875
has_exact_synonym: cell physiology
has_exact_synonym: cellular physiological process
has_narrow_synonym: cell growth and/or maintenance
has_obo_namespace: biological_process
has_related_synonym: single-organism cellular process
id: GO:0009987
in_subset: gocheck do not annotate
in_subset: goslim plant
comment: This term should not be used for direct annotation. It should be possible to make a more specific annotation to one of the children of this term.

Axiom
annotated source: cellular process
annotated property: definition
annotated target: Any process that is carried out at the cellular level, but not necessarily restricted to a single cell. For example, cell communication occurs among more than one cell, but occurs at the cellular level.
database_cross_reference: GOC:curators
database_cross_reference: GOC:isa_complete

programmed cell death
type: Class
subclass of: cellular process
subclass of: Restriction
  on property: has part
  some values from: signal transduction
definition: A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell.
term tracker item: https://github.com/geneontology/go-ontology/issues/24835
has_alternative_id: GO:0016244
has_broad_synonym: regulated cell death
database_cross_reference: Reactome:R-HSA-5357801
database_cross_reference: Wikipedia:Programmed_cell_death
has_narrow_synonym: caspase-independent cell death
has_narrow_synonym: non-apoptotic programmed cell death
has_narrow_synonym: nonapoptotic programmed cell death
has_obo_namespace: biological_process
has_related_synonym: PCD
has_related_synonym: RCD
has_related_synonym: caspase-independent apoptosis
id: GO:0012501
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
comment: Note that this term should be used to annotate gene products in the organism undergoing the programmed cell death. To annotate genes in another organism whose products modulate programmed cell death in a host organism, consider the term 'modulation by symbiont of host programmed cell death ; GO:0052040'. Also, note that 'programmed cell death ; GO:0012501' should be used to refer to instances of caspase-independent cell death mechanisms, in the absence of further indications on the process taking place. At present, caspase-independent cell death is not yet represented in GO due to the lack of consensus and in-depth research on the topic. 'programmed cell death ; GO:0012501' may also be used to annotate gene products in taxa where apoptosis as defined in GO:0006915 does not occur, such as plants. You may also consider these specific children: GO:0097468 'programmed cell death in response to reactive oxygen species' (with descendants GO:0010421 'hydrogen peroxide-mediated programmed cell death' and GO:0010343 'singlet oxygen-mediated programmed cell death'), and GO:0009626 'plant-type hypersensitive response' and its children.

Axiom
annotated source: programmed cell death
annotated property: definition
annotated target: A process which begins when a cell receives an internal or external signal and activates a series of biochemical events (signaling pathway). The process ends with the death of the cell.
database_cross_reference: GOC:lr
database_cross_reference: GOC:mtg_apoptosis

Programmed Cell Death
type: Axiom
annotated source: programmed cell death
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5357801

photosynthesis
type: Class
subclass of: metabolic process
definition: The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.
database_cross_reference: Wikipedia:Photosynthesis
has_obo_namespace: biological_process
id: GO:0015979
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: photosynthesis
annotated property: definition
annotated target: The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.
database_cross_reference: ISBN:0198547684

membrane
type: Class
subclass of: cellular_component
definition: A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
creation date: 2014-03-06T11:37:54Z
has_alternative_id: GO:0016021
has_alternative_id: GO:0098589
has_alternative_id: GO:0098805
database_cross_reference: Wikipedia:Biological_membrane
database_cross_reference: Wikipedia:Transmembrane_protein
has_narrow_synonym: integral component of membrane
has_narrow_synonym: integral to membrane
has_narrow_synonym: membrane region
has_narrow_synonym: region of membrane
has_narrow_synonym: whole membrane
has_obo_namespace: cellular_component
has_related_synonym: transmembrane
id: GO:0016020
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim yeast

Axiom
annotated source: membrane
annotated property: definition
annotated target: A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
database_cross_reference: GOC:dos
database_cross_reference: GOC:mah
database_cross_reference: ISBN:0815316194

Axiom
annotated source: membrane
annotated property: has_related_synonym
annotated target: transmembrane
database_cross_reference: GOC:mah

cellular component organization
type: Class
subclass of: cellular process
definition: A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.
has_alternative_id: GO:0044235
has_alternative_id: GO:0071842
has_exact_synonym: cell organisation
has_exact_synonym: cellular component organisation at cellular level
has_exact_synonym: cellular component organisation in other organism
has_exact_synonym: cellular component organization at cellular level
has_exact_synonym: cellular component organization in other organism
has_obo_namespace: biological_process
has_related_synonym: cell organization and biogenesis
id: GO:0016043
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: cellular component organization
annotated property: definition
annotated target: A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.
database_cross_reference: GOC:ai
database_cross_reference: GOC:jl
database_cross_reference: GOC:mah

Axiom
annotated source: cellular component organization
annotated property: has_exact_synonym
annotated target: cellular component organisation at cellular level
database_cross_reference: GOC:mah

Axiom
annotated source: cellular component organization
annotated property: has_exact_synonym
annotated target: cellular component organisation in other organism
database_cross_reference: GOC:mah

Axiom
annotated source: cellular component organization
annotated property: has_related_synonym
annotated target: cell organization and biogenesis
database_cross_reference: GOC:mah

cell growth
type: Class
subclass of: cellular process
subclass of: growth
definition: The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present.
has_alternative_id: GO:0048591
has_exact_synonym: cellular growth
has_exact_synonym: growth of cell
has_obo_namespace: biological_process
has_related_synonym: cell expansion
has_related_synonym: metabolic process resulting in cell growth
has_related_synonym: metabolism resulting in cell growth
has_related_synonym: non-developmental cell growth
has_related_synonym: non-developmental growth of a unicellular organism
id: GO:0016049
in_subset: gocheck do not annotate
in_subset: goslim drosophila
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: cell growth
annotated property: definition
annotated target: The process in which a cell irreversibly increases in size over time by accretion and biosynthetic production of matter similar to that already present.
database_cross_reference: GOC:ai

Axiom
annotated source: cell growth
annotated property: has_related_synonym
annotated target: non-developmental cell growth
database_cross_reference: GOC:mah

Axiom
annotated source: cell growth
annotated property: has_related_synonym
annotated target: non-developmental growth of a unicellular organism
database_cross_reference: GOC:mah

kinase activity
type: Class
subclass of: transferase activity
definition: Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
database_cross_reference: Reactome:R-HSA-6788855
database_cross_reference: Reactome:R-HSA-6788867
has_exact_synonym: phosphokinase activity
has_obo_namespace: molecular_function
id: GO:0016301
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast
comment: Note that this term encompasses all activities that transfer a single phosphate group; although ATP is by far the most common phosphate donor, reactions using other phosphate donors are included in this term.

Axiom
annotated source: kinase activity
annotated property: definition
annotated target: Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
database_cross_reference: ISBN:0198506732

FN3KRP phosphorylates PsiAm, RibAm
type: Axiom
annotated source: kinase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6788855

FN3K phosphorylates ketosamines
type: Axiom
annotated source: kinase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6788867

transferase activity
type: Class
subclass of: catalytic activity
definition: Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:2.-.-.-
database_cross_reference: Reactome:R-HSA-1483089
database_cross_reference: Reactome:R-HSA-1483186
database_cross_reference: Reactome:R-HSA-5333607
database_cross_reference: Reactome:R-HSA-5668414
database_cross_reference: Reactome:R-HSA-8868783
has_obo_namespace: molecular_function
id: GO:0016740
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: transferase activity
annotated property: definition
annotated target: Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
database_cross_reference: EC:2.-.-.-

PE is converted to PS by PTDSS2
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1483089

PC is converted to PS by PTDSS1
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1483186

GSSeH combines with bGalNAc derivative to form GSSebGalNac
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5333607

TRAF2 ubiquitinates cIAP1,2 in cIAP1,2:TRAF1:TRAF2:TRAF3:NIK
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5668414

TSR3 transfers aminocarboxypropyl group from S-adenosylmethionine to N(1)-methylpseudouridine-1248 of 18SE rRNA yielding N(1)-methyl-N(3)-aminocarboxypropylpseudouridine-1248
type: Axiom
annotated source: transferase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8868783

hydrolase activity
type: Class
subclass of: catalytic activity
definition: Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
term tracker item: https://github.com/geneontology/go-ontology/issues/30193
database_cross_reference: EC:3.-.-.-
database_cross_reference: Reactome:R-HSA-1236938
database_cross_reference: Reactome:R-HSA-2029475
database_cross_reference: Reactome:R-HSA-5694583
database_cross_reference: Reactome:R-HSA-5695964
database_cross_reference: Reactome:R-HSA-6786190
database_cross_reference: Reactome:R-HSA-6788295
database_cross_reference: Reactome:R-HSA-8938314
database_cross_reference: Reactome:R-HSA-8952137
database_cross_reference: Reactome:R-HSA-9942295
has_obo_namespace: molecular_function
id: GO:0016787
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote
in_subset: goslim yeast

Axiom
annotated source: hydrolase activity
annotated property: definition
annotated target: Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
database_cross_reference: ISBN:0198506732

Partial proteolysis of antigen in phagolysosomes
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-1236938

Production of AA by iPLA2 upon FCGR activation
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-2029475

ABHD4 hydrolyses NAPE
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5694583

ABHD14B hydrolyses PNPB
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-5695964

CMBL hydrolyses OM to OLMS
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6786190

HDHD1:Mg2+ dephosphorylates PURIDP
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-6788295

ENPPs hydrolyse CoA-SH to PPANT, PAP
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8938314

Phospholipid phosphatase 6 hydrolyses Presqualene diphosphate to presqualene monophosphate
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8952137

QNG1 hydrolyzes queuosine 5'-monophosphate yielding queuine and ribose 5'-monophosphate
type: Axiom
annotated source: hydrolase activity
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-9942295

protein metabolic process
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways involving a protein. Includes protein modification.
term tracker item: https://github.com/geneontology/go-ontology/issues/23112
term tracker item: https://github.com/geneontology/go-ontology/issues/27189
has_alternative_id: GO:0006411
has_alternative_id: GO:0044267
has_alternative_id: GO:0044268
database_cross_reference: Reactome:R-HSA-392499
database_cross_reference: Wikipedia:Protein_metabolism
has_exact_synonym: cellular protein metabolic process
has_exact_synonym: cellular protein metabolism
has_exact_synonym: protein metabolic process and modification
has_exact_synonym: protein metabolism
has_exact_synonym: protein metabolism and modification
has_narrow_synonym: multicellular organismal protein metabolic process
has_obo_namespace: biological_process
id: GO:0019538
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim flybase ribbon
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.

Axiom
annotated source: protein metabolic process
annotated property: definition
annotated target: The chemical reactions and pathways involving a protein. Includes protein modification.
database_cross_reference: GOC:ma

Metabolism of proteins
type: Axiom
annotated source: protein metabolic process
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-392499

cellular homeostasis
type: Class
subclass of: biological_process
definition: Any process involved in the maintenance of an internal steady state at the level of the cell.
has_obo_namespace: biological_process
id: GO:0019725
in_subset: goslim candida
in_subset: goslim euk cellular processes ribbon
in_subset: goslim plant

Axiom
annotated source: cellular homeostasis
annotated property: definition
annotated target: Any process involved in the maintenance of an internal steady state at the level of the cell.
database_cross_reference: GOC:isa_complete
database_cross_reference: GOC:jl
database_cross_reference: ISBN:0395825172

secondary metabolic process
type: Class
subclass of: metabolic process
definition: The chemical reactions and pathways resulting in many of the chemical changes of compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon. In multicellular organisms secondary metabolism is generally carried out in specific cell types, and may be useful for the organism as a whole. In unicellular organisms, secondary metabolism is often used for the production of antibiotics or for the utilization and acquisition of unusual nutrients.
database_cross_reference: Wikipedia:Secondary_metabolism
has_exact_synonym: secondary metabolism
has_exact_synonym: secondary metabolite metabolic process
has_exact_synonym: secondary metabolite metabolism
has_obo_namespace: biological_process
id: GO:0019748
in_subset: goslim chembl
in_subset: goslim euk cellular processes ribbon
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim pombe

Axiom
annotated source: secondary metabolic process
annotated property: definition
annotated target: The chemical reactions and pathways resulting in many of the chemical changes of compounds that are not necessarily required for growth and maintenance of cells, and are often unique to a taxon. In multicellular organisms secondary metabolism is generally carried out in specific cell types, and may be useful for the organism as a whole. In unicellular organisms, secondary metabolism is often used for the production of antibiotics or for the utilization and acquisition of unusual nutrients.
database_cross_reference: GOC:curators

oxygen binding
type: Class
subclass of: binding
definition: Binding to oxygen (O2).
has_narrow_synonym: cytochrome P450
has_obo_namespace: molecular_function
has_related_synonym: cytochrome P450 activity
id: GO:0019825
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: oxygen binding
annotated property: definition
annotated target: Binding to oxygen (O2).
database_cross_reference: GOC:jl

reproductive process
type: Class
subclass of: biological_process
definition: A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.
term tracker item: https://github.com/geneontology/go-ontology/issues/27054
created by: jl
creation date: 2012-09-19T15:56:06Z
has_alternative_id: GO:0019952
has_alternative_id: GO:0044702
has_alternative_id: GO:0050876
database_cross_reference: Wikipedia:Reproduction
has_obo_namespace: biological_process
has_related_synonym: single organism reproductive process
id: GO:0022414
in_subset: gocheck do not annotate
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: reproductive process
annotated property: definition
annotated target: A biological process that directly contributes to the process of producing new individuals by one or two organisms. The new individuals inherit some proportion of their genetic material from the parent or parents.
database_cross_reference: GOC:dph
database_cross_reference: GOC:isa_complete

cell differentiation
type: Class
subclass of: cellular process
definition: The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
term tracker item: https://github.com/geneontology/go-ontology/issues/24390
database_cross_reference: Wikipedia:Cellular_differentiation
has_obo_namespace: biological_process
id: GO:0030154
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim mouse
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: cell differentiation
annotated property: definition
annotated target: The cellular developmental process in which a relatively unspecialized cell, e.g. embryonic or regenerative cell, acquires specialized structural and/or functional features that characterize a specific cell. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
database_cross_reference: ISBN:0198506732

enzyme regulator activity
type: Class
subclass of: molecular_function
subclass of: Restriction
  on property: has part
  some values from: protein binding
subclass of: Restriction
  on property: regulates
  some values from: catalytic activity
definition: A molecular function regulator that modulates a catalytic activity.
has_alternative_id: GO:0010576
has_exact_synonym: catalytic regulator activity
has_exact_synonym: enzyme modulator
has_narrow_synonym: metalloenzyme regulator activity
has_obo_namespace: molecular_function
id: GO:0030234
in_subset: goslim agr
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast
comment: This term should only be used in cases when the regulator directly interacts with the enzyme, but does not result in a covalent modification.

Axiom
annotated source: enzyme regulator activity
annotated property: definition
annotated target: A molecular function regulator that modulates a catalytic activity.
database_cross_reference: GOC:pdt

Axiom
annotated source: enzyme regulator activity
annotated property: has_exact_synonym
annotated target: catalytic regulator activity
database_cross_reference: GOC:dph

carbohydrate binding
type: Class
subclass of: binding
definition: Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
has_alternative_id: GO:0005529
has_exact_synonym: sugar binding
has_obo_namespace: molecular_function
has_related_synonym: selectin
id: GO:0030246
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: carbohydrate binding
annotated property: definition
annotated target: Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
database_cross_reference: GOC:mah

external encapsulating structure
type: Class
subclass of: cellular_component
subclass of: Restriction
  on property: part of
  some values from: extracellular region
definition: A structure that lies outside the plasma membrane and surrounds the entire cell or cells. This does not include the periplasmic space.
term tracker item: https://github.com/geneontology/go-ontology/issues/31720
has_obo_namespace: cellular_component
id: GO:0030312
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim generic
in_subset: goslim pir
in_subset: goslim plant
comment: The outer membrane (of gram negative bacteria) or cell wall (of yeast or Gram positive bacteria) are defined as parts of this structure, see 'external encapsulating structure part'.

Axiom
annotated source: external encapsulating structure
annotated property: definition
annotated target: A structure that lies outside the plasma membrane and surrounds the entire cell or cells. This does not include the periplasmic space.
database_cross_reference: GOC:curators

protein modification process
type: Class
subclass of: protein metabolic process
definition: The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
term tracker item: https://github.com/geneontology/go-ontology/issues/23112
created by: bf
creation date: 2012-04-26T01:47:12Z
has_alternative_id: GO:0006464
has_exact_synonym: cellular protein modification process
has_exact_synonym: process resulting in protein modification
has_exact_synonym: protein modification
has_obo_namespace: biological_process
id: GO:0036211
in_subset: gocheck do not annotate
in_subset: goslim candida
in_subset: goslim chembl
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim prokaryote

Axiom
annotated source: protein modification process
annotated property: definition
annotated target: The covalent alteration of one or more amino acids occurring in proteins, peptides and nascent polypeptides (co-translational, post-translational modifications). Includes the modification of charged tRNAs that are destined to occur in a protein (pre-translation modification).
database_cross_reference: GOC:bf
database_cross_reference: GOC:jl

Axiom
annotated source: protein modification process
annotated property: has_exact_synonym
annotated target: protein modification
database_cross_reference: GOC:bf

signaling receptor activity
type: Class
subclass of: molecular_function
definition: Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.
created by: bf
creation date: 2011-08-01T02:45:27Z
has_alternative_id: GO:0004872
has_alternative_id: GO:0019041
has_broad_synonym: receptor activity
has_exact_synonym: receptor activity involved in signal transduction
has_exact_synonym: signalling receptor activity
has_obo_namespace: molecular_function
id: GO:0038023
in_subset: goslim agr
in_subset: goslim chembl
in_subset: goslim drosophila
in_subset: goslim flybase ribbon
in_subset: goslim metagenomics
in_subset: goslim mouse
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: signaling receptor activity
annotated property: definition
annotated target: Receiving a signal and transmitting it in the cell to initiate a change in cell activity. A signal is a physical entity or change in state that is used to transfer information in order to trigger a response.
database_cross_reference: GOC:bf
database_cross_reference: GOC:signaling

Axiom
annotated source: signaling receptor activity
annotated property: has_exact_synonym
annotated target: receptor activity involved in signal transduction
database_cross_reference: GOC:bf

growth
type: Class
subclass of: biological_process
definition: The increase in size or mass of an entire organism, a part of an organism or a cell.
has_alternative_id: GO:0048590
has_obo_namespace: biological_process
has_related_synonym: growth pattern
has_related_synonym: non-developmental growth
id: GO:0040007
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim pir
in_subset: goslim plant
comment: See also the biological process term 'cell growth ; GO:0016049'.

Axiom
annotated source: growth
annotated property: definition
annotated target: The increase in size or mass of an entire organism, a part of an organism or a cell.
database_cross_reference: GOC:bf
database_cross_reference: GOC:ma

Axiom
annotated source: growth
annotated property: has_related_synonym
annotated target: non-developmental growth
database_cross_reference: GOC:mah

epigenetic regulation of gene expression
type: Class
subclass of: cellular component organization
subclass of: Restriction
  on property: regulates
  some values from: biosynthetic process
definition: A process that modulates the frequency, rate or extent of gene expression through chromatin remodeling either by modifying higher order chromatin fiber structure, nucleosomal histones, or cytosine methylation of DNA. Once established, this regulation may be maintained over many cell divisions. It can also be heritable in the absence of the instigating signal.
term tracker item: https://github.com/geneontology/go-ontology/issues/22201
term tracker item: https://github.com/geneontology/go-ontology/issues/24794
database_cross_reference: Reactome:R-HSA-212165
database_cross_reference: Reactome:R-HSA-8986944
has_exact_synonym: regulation of gene expression, epigenetic
has_obo_namespace: biological_process
id: GO:0040029
in_subset: goslim plant

Axiom
annotated source: epigenetic regulation of gene expression
annotated property: definition
annotated target: A process that modulates the frequency, rate or extent of gene expression through chromatin remodeling either by modifying higher order chromatin fiber structure, nucleosomal histones, or cytosine methylation of DNA. Once established, this regulation may be maintained over many cell divisions. It can also be heritable in the absence of the instigating signal.
database_cross_reference: PMID:10521337
database_cross_reference: PMID:11498582
database_cross_reference: PMID:22243696
database_cross_reference: PMID:34414474

Epigenetic regulation of gene expression
type: Axiom
annotated source: epigenetic regulation of gene expression
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-212165

Transcriptional Regulation by MECP2
type: Axiom
annotated source: epigenetic regulation of gene expression
annotated property: database_cross_reference
annotated target: Reactome:R-HSA-8986944

response to chemical
type: Class
subclass of: biological_process
definition: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus.
has_exact_synonym: response to chemical stimulus
has_exact_synonym: response to chemical substance
has_obo_namespace: biological_process
id: GO:0042221
in_subset: gocheck do not annotate
in_subset: goslim candida
in_subset: goslim drosophila
in_subset: goslim metagenomics
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim yeast
comment: Note that this term is in the subset of terms that should not be used for direct gene product annotation. Instead, select a child term or, if no appropriate child term exists, please request a new term. Direct annotations to this term may be amended during annotation QC.

Axiom
annotated source: response to chemical
annotated property: definition
annotated target: Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chemical stimulus.
database_cross_reference: GOC:jl

Axiom
annotated source: response to chemical
annotated property: has_exact_synonym
annotated target: response to chemical stimulus
database_cross_reference: GOC:dos

translation regulator activity
type: Class
subclass of: molecular_function
subclass of: Restriction
  on property: part of
  some values from: biological_process
definition: Any molecular function involved in the regulation of initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome.
term tracker item: https://github.com/geneontology/go-ontology/issues/29089
has_obo_namespace: molecular_function
id: GO:0045182
in_subset: goslim candida
in_subset: goslim drosophila
in_subset: goslim euk cellular processes ribbon
in_subset: goslim generic
in_subset: goslim pir
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: translation regulator activity
annotated property: definition
annotated target: Any molecular function involved in the regulation of initiation, activation, perpetuation, repression or termination of polypeptide synthesis at the ribosome.
database_cross_reference: GOC:ai

anatomical structure development
type: Class
subclass of: biological_process
definition: The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.
term tracker item: https://github.com/geneontology/go-ontology/issues/26424
has_exact_synonym: development of an anatomical structure
has_obo_namespace: biological_process
id: GO:0048856
in_subset: gocheck do not annotate
in_subset: goslim chembl
in_subset: goslim generic
in_subset: goslim plant
in_subset: goslim plant ribbon

Axiom
annotated source: anatomical structure development
annotated property: definition
annotated target: The biological process whose specific outcome is the progression of an anatomical structure from an initial condition to its mature state. This process begins with the formation of the structure and ends with the mature structure, whatever form that may be including its natural destruction. An anatomical structure is any biological entity that occupies space and is distinguished from its surroundings. Anatomical structures can be macroscopic such as a carpel, or microscopic such as an acrosome.
database_cross_reference: GO_REF:0000021

regulation of molecular function
type: Class
subclass of: biological_process
subclass of: Restriction
  on property: regulates
  some values from: molecular_function
definition: Any process that modulates the frequency, rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding.
has_exact_synonym: regulation of a molecular function
has_obo_namespace: biological_process
id: GO:0065009
in_subset: gocheck obsoletion candidate
in_subset: goslim pir
in_subset: goslim plant

Axiom
annotated source: regulation of molecular function
annotated property: definition
annotated target: Any process that modulates the frequency, rate or extent of a molecular function, an elemental biological activity occurring at the molecular level, such as catalysis or binding.
database_cross_reference: GOC:isa_complete

transcription regulator activity
type: Class
subclass of: molecular_function
definition: A molecular function that controls the rate, timing and/or magnitude of gene transcription. The function of transcriptional regulators is to modulate gene expression at the transcription step so that they are expressed in the right cell at the right time and in the right amount throughout the life of the cell and the organism. Genes are transcriptional units, and include bacterial operons.
term tracker item: https://github.com/geneontology/go-ontology/issues/13588
term tracker item: https://github.com/geneontology/go-ontology/issues/23609
created by: pg
creation date: 2017-10-18T07:05:44Z
has_obo_namespace: molecular_function
id: GO:0140110
in_subset: gocheck do not annotate
in_subset: goslim euk cellular processes ribbon
in_subset: goslim flybase ribbon
in_subset: goslim generic
in_subset: goslim plant
in_subset: goslim plant ribbon
in_subset: goslim prokaryote
in_subset: goslim prokaryote ribbon

Axiom
annotated source: transcription regulator activity
annotated property: definition
annotated target: A molecular function that controls the rate, timing and/or magnitude of gene transcription. The function of transcriptional regulators is to modulate gene expression at the transcription step so that they are expressed in the right cell at the right time and in the right amount throughout the life of the cell and the organism. Genes are transcriptional units, and include bacterial operons.
database_cross_reference: GOC:pg
database_cross_reference: GOC:txnOH-2018
database_cross_reference: Wikipedia:Transcription_factor