daf-12 Nuclear hormone receptor HR3;Nuclear hormone receptor family member daf-12 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: daf-12
Official Full Name: Nuclear hormone receptor HR3;Nuclear hormone receptor family member daf-12
Primary source: WormBase:WBGene00000908
Locus tag: CELE_F11A1.3
See related: AllianceGenome:WB:WBGene00000908
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables nuclear receptor activity; sequence-specific DNA binding activity; and steroid hormone binding activity. Involved in several processes, including determination of adult lifespan; heat acclimation; and positive regulation of dauer larval development. Located in nucleus. Is expressed in several structures, including gonad; nervous system; pharyngeal muscle cell; somatic gonad precursor; and vulva. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); carcinoma (multiple); liver disease (multiple); lung disease (multiple); and melanoma (multiple). Orthologous to human VDR (vitamin D receptor). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See daf-12 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 19

Sequence:: Chromosome: X; NC_003284.9 (10644409..10666875)

Chromosome X - NC_003284.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003284.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Filarial DAF-12 sense the host serum to resume iL3 development during infection.
Title: Filarial DAF-12 sense the host serum to resume iL3 development during infection.
DAF-16/FoxO and DAF-12/VDR control cellular plasticity both cell-autonomously and via interorgan signaling.
Title: DAF-16/FoxO and DAF-12/VDR control cellular plasticity both cell-autonomously and via interorgan signaling.
DAF-12 nuclear hormone receptor pathway functions cell-intrinsically in the dauer diapause to arrest neuron morphological aging.
Title: A hormone receptor pathway cell-autonomously delays neuron morphological aging by suppressing endocytosis.
that CYP-37A1 (ortholog of human cytochrome P450 CYP4V2), EMB-8 (ortholog of human P450 oxidoreductase POR), and DAF-12 (homolog of human nuclear receptors VDR/LXR) constitute a hormone synthesis and nuclear receptor pathway in Caenorhabditis elegans.
Title: Specific regulation of thermosensitive lipid droplet fusion by a nuclear hormone receptor pathway.
Pdda is abolished by synthetic ascarosides and steroidal ligands of the nuclear hormone receptor DAF-12. We show that neither ascarosides nor any known steroid hormones are required for Pdda and that another chemical signal mediates this phenotype, in part via the nuclear hormone receptor NHR-8.
Title: Larval crowding accelerates C. elegans development and reduces lifespan.
We consider irg-7 to be an integral downstream component of the germline longevity pathway because its expression increases upon germ cell removal and its depletion interferes with the activation of the longevity-promoting transcription factors DAF-16 and DAF-12 in germlineless animals.
Title: Innate immunity mediated longevity and longevity induced by germ cell removal converge on the C-type lectin domain protein IRG-7.
When bound to its ligand, DAF-12 acquires transcriptional activity that directs reproductive development, while unliganded DAF-12 forms a dauer-specifying complex with its interacting protein DIN-1S to regulate the transcription of genes required for dauer development
Title: Developmental and Cell Cycle Quiescence Is Mediated by the Nuclear Hormone Receptor Coregulator DIN-1S in the Caenorhabditis elegans Dauer Larva.
The dbl-1/TGF-beta and daf-12/NHR pathways have not previously been shown to affect L1 development, but disruption of these pathways delayed L1 development in fed larvae, consistent with these pathways promoting development in starved daf-16/FOXO mutants.
Title: dbl-1/TGF-β and daf-12/NHR Signaling Mediate Cell-Nonautonomous Effects of daf-16/FOXO on Starvation-Induced Developmental Arrest.
Study reports that in addition to its well-studied role in controlling developmental gene expression, the DAF-12 endocrine system governs expression of a gene network that stimulates the aerobic catabolism of fatty acids. Thus, activation of the DAF-12 transcriptome coordinately mobilizes energy stores to permit reproductive growth.
Title: The nuclear receptor DAF-12 regulates nutrient metabolism and reproductive growth in nematodes.
Under daf-12 RNAi rescue of survival by carnitine was abolished. RNA-interference for gamma-butyrobetaine hydroxylase 2, encoding the key enzyme for carnitine biosynthesis did neither increase glucose toxicity nor prevent the rescue of survival by carnitine
Title: Carnitine protects the nematode Caenorhabditis elegans from glucose-induced reduction of survival depending on the nuclear hormone receptor DAF-12.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

F11A1.3 (e-PCR)
- UniSTS:307461

F11A1.2 (e-PCR)
- UniSTS:320038

F11A1.1 (e-PCR)
- UniSTS:315699

STS6-176 (e-PCR)
- UniSTS:242558

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables (25S)-Delta(4)-dafachronate binding	IDA Inferred from Direct Assay more info	PubMed
enables (25S)-Delta(7)-dafachronate binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in chemotaxis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in dauer larval development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in determination of adult lifespan	IGI Inferred from Genetic Interaction more info	PubMed
involved_in heat acclimation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in intracellular receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in male mating behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of dauer larval development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of dauer larval development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of development, heterochronic	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of nematode pharyngeal pumping	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Nuclear hormone receptor HR3;Nuclear hormone receptor family member daf-12

NP_001024547.1

Confirmed by transcript evidence

NP_001041239.1

Confirmed by transcript evidence

NP_001366986.1

Confirmed by transcript evidence

NP_001366987.1

Confirmed by transcript evidence

NP_001379300.1

Confirmed by transcript evidence

NP_001407484.1

Confirmed by transcript evidence

NP_001407485.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003284.9 Reference assembly

Range

10644409..10666875

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001420577.1 → NP_001407484.1 Nuclear hormone receptor HR3 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A6V7QZA2
NM_001392835.1 → NP_001379300.1 Nuclear hormone receptor family member daf-12 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A6V7QYS9

Conserved Domains (3) summary

cd06929
Location:532 → 717

NR_LBD_F1; Ligand-binding domain of nuclear receptor family 1

cd06966
Location:116 → 209

NR_DBD_CAR; DNA-binding domain of constitutive androstane receptor (CAR) is composed of two C4-type zinc fingers

PLN02983
Location:241 → 364

PLN02983; biotin carboxyl carrier protein of acetyl-CoA carboxylase
NM_001029376.6 → NP_001024547.1 Nuclear hormone receptor family member daf-12 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001024547.1

Status: REVIEWED

UniProtKB/Swiss-Prot

G5EBZ6, G5EFF5, G5EG55, Q2XN07

Conserved Domains (2) summary

cd06929
Location:548 → 733

NR_LBD_F1; Ligand-binding domain of nuclear receptor family 1

cd06966
Location:116 → 209

NR_DBD_CAR; DNA-binding domain of constitutive androstane receptor (CAR) is composed of two C4-type zinc fingers
NM_001420576.1 → NP_001407485.1 Nuclear hormone receptor HR3 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A6V7QZ48
NM_001047774.5 → NP_001041239.1 Nuclear hormone receptor family member daf-12 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001041239.1

Status: REVIEWED

UniProtKB/Swiss-Prot

G5EFF5

Conserved Domains (2) summary

cd06929
Location:514 → 699

NR_LBD_F1; Ligand-binding domain of nuclear receptor family 1

cd06966
Location:82 → 175

NR_DBD_CAR; DNA-binding domain of constitutive androstane receptor (CAR) is composed of two C4-type zinc fingers
NM_001381088.1 → NP_001366986.1 Nuclear hormone receptor family member daf-12 [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (3) summary

cd06929
Location:489 → 674

NR_LBD_F1; Ligand-binding domain of nuclear receptor family 1

cd06966
Location:57 → 150

NR_DBD_CAR; DNA-binding domain of constitutive androstane receptor (CAR) is composed of two C4-type zinc fingers

PLN02983
Location:182 → 305

PLN02983; biotin carboxyl carrier protein of acetyl-CoA carboxylase
NM_001381089.2 → NP_001366987.1 Nuclear hormone receptor family member daf-12 [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (1) summary

cd06929
Location:62 → 247

NR_LBD_F1; Ligand-binding domain of nuclear receptor family 1