Lhx1 LIM homeobox protein 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Lhx1provided by MGI
Official Full Name: LIM homeobox protein 1provided by MGI
Primary source: MGI:MGI:99783
See related: Ensembl:ENSMUSG00000018698 AllianceGenome:MGI:99783
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Lim1
Summary: Enables DNA-binding transcription factor activity and cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including kidney development; nervous system development; and reproductive structure development. Acts upstream of or within several processes, including cerebellar Purkinje cell differentiation; gastrulation; and regionalization. Located in nucleus. Part of transcription regulator complex. Is expressed in several structures, including central nervous system; embryo mesoderm; genitourinary system; gut; and sensory organ. Orthologous to human LHX1 (LIM homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in whole brain E14.5 (RPKM 11.5), CNS E11.5 (RPKM 10.7) and 5 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 C; 11 51.31 cM

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (84408801..84416360, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (84517975..84525534, complement)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Differentiation of mouse embryonic stem cells into cells with spermatogonia-like morphology with chemical intervention-dependent increased gene expression of LIM homeobox 1 (Lhx1).
Title: Differentiation of mouse embryonic stem cells into cells with spermatogonia-like morphology with chemical intervention-dependent increased gene expression of LIM homeobox 1 (Lhx1).
Neuronal Lhx1 expression is regulated by DNMT1-dependent modulation of histone marks.
Title: Neuronal Lhx1 expression is regulated by DNMT1-dependent modulation of histone marks.
Study shows the Transcription Factor LHX1 Regulates the Survival and Directed Migration of POA-derived Cortical Interneurons.
Title: The Transcription Factor LHX1 Regulates the Survival and Directed Migration of POA-derived Cortical Interneurons.
data are the first to reveal that the Lhx1 transcription factor contributes to normal glucose homeostasis and Glp1 responses.
Title: The islet-expressed Lhx1 transcription factor interacts with Islet-1 and contributes to glucose homeostasis.
Findings suggest that Lhx1/5, through regulating Espin protein expression, control dendritogenesis and spine morphogenesis in postnatal Purkinje cells (PCs).
Title: Lhx1/5 control dendritogenesis and spine morphogenesis of Purkinje cells via regulation of Espin.
Loss of LHX1 is associated with loss of acute light control of sleep.
Title: An LHX1-Regulated Transcriptional Network Controls Sleep/Wake Coupling and Thermal Resistance of the Central Circadian Clockworks.
Smad4/Eomes-dependent Lhx1 expression in the epiblast marks the entire definitive endoderm lineage, the anterior mesendoderm, and midline progenitors.
Title: Lhx1 functions together with Otx2, Foxa2, and Ldb1 to govern anterior mesendoderm, node, and midline development.
LHX1 is required in the anterior mesendoderm, but not in the mesoderm, for formation of the head.
Title: Context-specific function of the LIM homeobox 1 transcription factor in head formation of the mouse embryo.
Lhx1 maintains synchrony among circadian oscillator neurons of the suprachiasmatic nucleus.
Title: Lhx1 maintains synchrony among circadian oscillator neurons of the SCN.
Lhx1 is necessary for SCN terminal differentiation, including expression of neuropeptides profoundly important for circadian function.
Title: Lhx1 controls terminal differentiation and circadian function of the suprachiasmatic nucleus.

Submit: New GeneRIF Correction See all GeneRIFs (25)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (10) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Lhx1 (e-PCR), detects polymorphism
- UniSTS:178183

Lhx1 (e-PCR), detects polymorphism
- UniSTS:178184

NoName (e-PCR)
- UniSTS:548148

Z27410 (e-PCR)
- UniSTS:160136

Lhx1 (e-PCR), detects polymorphism
- UniSTS:507019

Z27410 (e-PCR)
- UniSTS:125923

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity	IGI Inferred from Genetic Interaction more info	PubMed
enables DNA-binding transcription factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription factor activity	TAS Traceable Author Statement more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in S-shaped body morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within anatomical structure formation involved in morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anatomical structure formation involved in morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within anatomical structure morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within anterior/posterior axis specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anterior/posterior pattern specification	IGI Inferred from Genetic Interaction more info	PubMed
involved_in branching involved in ureteric bud morphogenesis	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell-cell signaling	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cellular response to fibroblast growth factor stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebellar Purkinje cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within cerebellar Purkinje cell-granule cell precursor cell signaling involved in regulation of granule cell precursor cell proliferation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within cerebellum development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cervix development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in comma-shaped body morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within ectoderm formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic pattern specification	IGI Inferred from Genetic Interaction more info	PubMed
involved_in embryonic retina morphogenesis in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic viscerocranium morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endoderm formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in epithelium development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within forebrain regionalization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within gastrulation with mouth forming second	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within head development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in head development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within kidney development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in lateral motor column neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of mesendoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mesonephric duct development	IEA Inferred from Electronic Annotation more info
involved_in mesonephros development	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephric S-shaped body morphogenesis	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephric comma-shaped body morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in metanephric glomerulus development	IEA Inferred from Electronic Annotation more info
involved_in metanephric part of ureteric bud development	IEA Inferred from Electronic Annotation more info
involved_in metanephric renal vesicle morphogenesis	IEP Inferred from Expression Pattern more info	PubMed
involved_in metanephros development	IEP Inferred from Expression Pattern more info	PubMed
involved_in motor neuron axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nephric duct elongation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nephric duct morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in oviduct development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in oviduct epithelium development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in paramesonephric duct development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pattern specification process	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within pattern specification process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of anterior head development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of branching involved in ureteric bud morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gastrulation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of nephron tubule epithelial cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within post-embryonic development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within primitive streak formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in primitive streak formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pronephros development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in renal vesicle morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in retina development in camera-type eye	IEP Inferred from Expression Pattern more info	PubMed
involved_in retina layer formation	IEP Inferred from Expression Pattern more info	PubMed
involved_in retina layer formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within somite rostral/caudal axis specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spinal cord association neuron differentiation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in spinal cord development	IEP Inferred from Expression Pattern more info	PubMed
involved_in telencephalon development	IEP Inferred from Expression Pattern more info	PubMed
involved_in transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within ureter morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within ureteric bud development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within urogenital system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in uterine epithelium development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in uterus development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vagina development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ventral spinal cord development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in intracellular anatomical structure	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	TAS Traceable Author Statement more info
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	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
part_of transcription regulator complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: LIM/homeobox protein Lhx1

Names: LIM homeo box protein 1; homeobox protein Lim-1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_008498.3 → NP_032524.1 LIM/homeobox protein Lhx1

See identical proteins and their annotated locations for NP_032524.1

Status: VALIDATED

Source sequence(s)

AL603708

Consensus CDS

CCDS25187.1

UniProtKB/Swiss-Prot

P63006

UniProtKB/TrEMBL

Q3URX6, Q569N5

Related

ENSMUSP00000018842.7, ENSMUST00000018842.14

Conserved Domains (4) summary

cd09367
Location:4 → 55

LIM1_Lhx1_Lhx5; The first LIM domain of Lhx1 (also known as Lim1) and Lhx5

cd09375
Location:63 → 118

LIM2_Lhx1_Lhx5; The second LIM domain of Lhx1 (also known as Lim1) and Lhx5

PRK14086
Location:263 → 382

dnaA; chromosomal replication initiator protein DnaA

pfam00046
Location:183 → 237

Homeobox; Homeobox domain