fax-1 Nuclear hormone receptor family member fax-1 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: fax-1
Official Full Name: Nuclear hormone receptor family member fax-1
Primary source: WormBase:WBGene00001400
Locus tag: CELE_F56E3.4
See related: AllianceGenome:WB:WBGene00001400
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 DNA-binding transcription factor activity, RNA polymerase II-specific and sequence-specific DNA binding activity. Involved in several processes, including neuron differentiation; positive regulation of transcription by RNA polymerase II; and regulation of backward locomotion. Located in nucleus. Is expressed in several structures, including anal region; hermaphrodite distal tip cell; neurons; rect_D; and vulva. Human ortholog(s) of this gene implicated in enhanced S-cone syndrome and retinitis pigmentosa 37. Orthologous to human NR2E3 (nuclear receptor subfamily 2 group E member 3). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See fax-1 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 8

Sequence:: Chromosome: X; NC_003284.9 (3196064..3199349, complement)

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?

that the difference between FAX-1 and NHR-67 binding preference is partially mediated by a conserved subclass-specific asparagine or aspartate residue at position 19 of the DNA-binding domain
Title: Specificity of DNA-binding by the FAX-1 and NHR-67 nuclear receptors of Caenorhabditis elegans is partially mediated via a subclass-specific P-box residue.
Observations support a combinatorial role for fax-1 and unc-42 in identification of AVA and AVE interneuron pairs that coordinate body movements.
Title: The C. elegans nuclear receptor gene fax-1 and homeobox gene unc-42 coordinate interneuron identity by regulating the expression of glutamate receptor subunits and other neuron-specific genes.

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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

F56E3.1 (e-PCR)
- UniSTS:316822

F56E3.4 (e-PCR)
- UniSTS:305644

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
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 DNA-binding transcription factor activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
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 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 axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in locomotory behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron fate specification	IGI Inferred from Genetic Interaction more info	PubMed
involved_in neuron fate specification	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 backward locomotion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of forward locomotion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in axon	IEA Inferred from Electronic Annotation more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation 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 family member fax-1

NP_001263953.1

Confirmed by transcript evidence

NP_508547.1

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

3196064..3199349 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001277024.2 → NP_001263953.1 Nuclear hormone receptor family member fax-1 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001263953.1

Status: REVIEWED

UniProtKB/TrEMBL

J7S155

Conserved Domains (2) summary

cd06970
Location:94 → 185

NR_DBD_PNR; DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) is composed of two C4-type zinc fingers

cl11397
Location:289 → 367

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators
NM_076146.4 → NP_508547.1 Nuclear hormone receptor family member fax-1 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_508547.1

Status: REVIEWED

UniProtKB/Swiss-Prot

G5EDJ0, J7S155

Conserved Domains (2) summary

cd06970
Location:94 → 185

NR_DBD_PNR; DNA-binding domain of the photoreceptor cell-specific nuclear receptor (PNR) is composed of two C4-type zinc fingers

cl11397
Location:243 → 320

NR_LBD; The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators