U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Lhx2 LIM homeobox protein 2 [ Mus musculus (house mouse) ]

Gene ID: 16870, updated on 28-Mar-2023

Summary

Official Symbol
Lhx2provided by MGI
Official Full Name
LIM homeobox protein 2provided by MGI
Primary source
MGI:MGI:96785
See related
Ensembl:ENSMUSG00000000247 AllianceGenome:MGI:96785
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
ap; LH2A; Lh-2; Lim2; apterous
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin binding activity. Involved in negative regulation of neurogenesis; positive regulation of neural precursor cell proliferation; and regulation of gene expression. Acts upstream of or within several processes, including hair follicle development; maintenance of epithelial cell apical/basal polarity; and nervous system development. Located in nucleus. Is expressed in several structures, including branchial arch; limb; nervous system; sensory organ; and septum transversum. Orthologous to human LHX2 (LIM homeobox 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E14 (RPKM 42.9), whole brain E14.5 (RPKM 35.2) and 6 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Lhx2 in Genome Data Viewer
Location:
2; 2 B
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (38229226..38259749)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (38339271..38369737)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene spermatid perinuclear RNA binding protein Neighboring gene microRNA 5128 Neighboring gene DENN domain containing 1A Neighboring gene crumbs family member 2 Neighboring gene predicted gene, 46736 Neighboring gene predicted gene 27197 Neighboring gene predicted gene 13584 Neighboring gene NIMA (never in mitosis gene a)-related expressed kinase 6 Neighboring gene predicted gene, 39799 Neighboring gene predicted gene, 25081 Neighboring gene thymosin, beta 10 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (8)  1 citation
  • Endonuclease-mediated (1) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
acts_upstream_of_or_within anatomical structure formation involved in morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within axon extension IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within brain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cerebral cortex development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cerebral cortex development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within dorsal/ventral pattern formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within hair follicle development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within maintenance of epithelial cell apical/basal polarity IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within mesoderm development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of gene expression, epigenetic IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of neurogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of transcription regulatory region DNA binding IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within nervous system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neural tube closure IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neurogenesis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within olfactory bulb development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of neural precursor cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within 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 IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
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 transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within retina development in camera-type eye IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within telencephalon development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within telencephalon regionalization IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within telencephalon regionalization IMP
Inferred from Mutant Phenotype
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
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IMP
Inferred from Mutant Phenotype
more info
PubMed 

General protein information

Preferred Names
LIM/homeobox protein Lhx2
Names
LIM homeo box protein 2
homeobox protein LH-2

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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)

  1. NM_001290646.1NP_001277575.1  LIM/homeobox protein Lhx2 isoform b

    See identical proteins and their annotated locations for NP_001277575.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an alternate 5' terminal exon and it thus differs in the 5' UTR and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (b) is shorter at the N-terminus, compared to isoform a.
    Source sequence(s)
    BB674460, BC086638, BX813320
    Consensus CDS
    CCDS71048.1
    UniProtKB/TrEMBL
    A0A6P7QHE3, F6Z9H5
    Related
    ENSMUSP00000114797.3, ENSMUST00000143783.9
    Conserved Domains (4) summary
    cd09377
    Location:70128
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:265
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:206337
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:229282
    Homeobox; Homeobox domain
  2. NM_010710.4NP_034840.1  LIM/homeobox protein Lhx2 isoform a

    See identical proteins and their annotated locations for NP_034840.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AK053572, BX813320
    Consensus CDS
    CCDS16008.1
    UniProtKB/Swiss-Prot
    Q9Z0S2
    UniProtKB/TrEMBL
    A0A6P5P726, A0A8C6G5E5, Q543C6
    Related
    ENSMUSP00000000253.6, ENSMUST00000000253.6
    Conserved Domains (4) summary
    cd09377
    Location:111169
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:43106
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:247378
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:270323
    Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    38229226..38259749
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006497734.3XP_006497797.1  LIM/homeobox protein Lhx2 isoform X2

    See identical proteins and their annotated locations for XP_006497797.1

    Conserved Domains (4) summary
    cd09377
    Location:78136
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:265
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:214345
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:237290
    Homeobox; Homeobox domain
  2. XM_006497738.5XP_006497801.1  LIM/homeobox protein Lhx2 isoform X3

    See identical proteins and their annotated locations for XP_006497801.1

    UniProtKB/TrEMBL
    A0A6P7QHE3, F6Z9H5
    Conserved Domains (4) summary
    cd09377
    Location:70128
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:265
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:206337
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:229282
    Homeobox; Homeobox domain
  3. XM_006497735.3XP_006497798.1  LIM/homeobox protein Lhx2 isoform X2

    See identical proteins and their annotated locations for XP_006497798.1

    Conserved Domains (4) summary
    cd09377
    Location:78136
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:265
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:214345
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:237290
    Homeobox; Homeobox domain
  4. XM_006497736.4XP_006497799.1  LIM/homeobox protein Lhx2 isoform X2

    See identical proteins and their annotated locations for XP_006497799.1

    Conserved Domains (4) summary
    cd09377
    Location:78136
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:265
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:214345
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:237290
    Homeobox; Homeobox domain
  5. XM_006497739.2XP_006497802.1  LIM/homeobox protein Lhx2 isoform X3

    See identical proteins and their annotated locations for XP_006497802.1

    UniProtKB/TrEMBL
    A0A6P7QHE3, F6Z9H5
    Conserved Domains (4) summary
    cd09377
    Location:70128
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:265
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:206337
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:229282
    Homeobox; Homeobox domain
  6. XM_006497733.1XP_006497796.1  LIM/homeobox protein Lhx2 isoform X1

    See identical proteins and their annotated locations for XP_006497796.1

    Conserved Domains (4) summary
    cd09377
    Location:119177
    LIM2_Lhx2_Lhx9; The second LIM domain of Lhx2 and Lhx9 family
    cd09469
    Location:43106
    LIM1_Lhx2; The first LIM domain of Lhx2
    COG5576
    Location:255386
    COG5576; Homeodomain-containing transcription factor [Transcription]
    pfam00046
    Location:278331
    Homeobox; Homeobox domain