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

Gene ID: 16870, updated on 31-Dec-2019

Summary

Official Symbol
Lhx2provided by MGI
Official Full Name
LIM homeobox protein 2provided by MGI
Primary source
MGI:MGI:96785
See related
Ensembl:ENSMUSG00000000247
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
Expression
Biased expression in CNS E14 (RPKM 42.9), whole brain E14.5 (RPKM 35.2) and 6 other tissues See more
Orthologs

Genomic context

See Lhx2 in Genome Data Viewer
Location:
2; 2 B
Exon count:
8
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (38339271..38369737)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 2 NC_000068.6 (38206828..38225248)

Chromosome 2 - NC_000068.7Genomic Context describing neighboring genes Neighboring gene DENN/MADD 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 predicted gene, 39799 Neighboring gene predicted gene, 25081 Neighboring gene thymosin, beta 10 pseudogene Neighboring gene NIMA (never in mitosis gene a)-related expressed kinase 6

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)

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

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
    F6Z9H5
    Related
    ENSMUSP00000114797.2, ENSMUST00000143783.8
    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
    pfam00046
    Location:229281
    Homeobox; Homeobox domain
    cl27820
    Location:206337
    Abdominal-A; Homeobox protein
  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
    Q543C6
    Related
    ENSMUSP00000000253.5, ENSMUST00000000253.5
    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 108 details...Open this link in a new tab

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

Reference GRCm38.p6 C57BL/6J

Genomic

  1. NC_000068.7 Reference GRCm38.p6 C57BL/6J

    Range
    38339271..38369737
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006497734.2XP_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:237289
    Homeobox; Homeobox domain
  2. XM_006497738.4XP_006497801.1  LIM/homeobox protein Lhx2 isoform X3

    See identical proteins and their annotated locations for XP_006497801.1

    UniProtKB/TrEMBL
    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
    pfam00046
    Location:229281
    Homeobox; Homeobox domain
    cl27820
    Location:206337
    Abdominal-A; Homeobox protein
  3. XM_006497735.2XP_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:237289
    Homeobox; Homeobox domain
  4. 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
    pfam00046
    Location:278330
    Homeobox; Homeobox domain
    cl27820
    Location:255386
    Abdominal-A; Homeobox protein
  5. XM_006497739.1XP_006497802.1  LIM/homeobox protein Lhx2 isoform X3

    See identical proteins and their annotated locations for XP_006497802.1

    UniProtKB/TrEMBL
    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
    pfam00046
    Location:229281
    Homeobox; Homeobox domain
    cl27820
    Location:206337
    Abdominal-A; Homeobox protein
  6. XM_006497736.3XP_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:237289
    Homeobox; Homeobox domain
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