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Aliases for EMX1 Gene

Aliases for EMX1 Gene

  • Empty Spiracles Homeobox 1 2 3
  • Empty Spiracles Homolog 1 (Drosophila) 2
  • Empty Spiracles-Like Protein 1 4
  • Empty Spiracles Homolog 1 4

External Ids for EMX1 Gene

Previous GeneCards Identifiers for EMX1 Gene

  • GC02P073154
  • GC02P073356
  • GC02P073119
  • GC02P073056
  • GC02P072880
  • GC02P073144
  • GC02P073148

Summaries for EMX1 Gene

GeneCards Summary for EMX1 Gene

EMX1 (Empty Spiracles Homeobox 1) is a Protein Coding gene. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity and sequence-specific DNA binding. An important paralog of this gene is EN2.

UniProtKB/Swiss-Prot for EMX1 Gene

  • Transcription factor, which in cooperation with EMX2, acts to generate the boundary between the roof and archipallium in the developing brain. May function in combinations with OTX1/2 to specify cell fates in the developing central nervous system

Gene Wiki entry for EMX1 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EMX1 Gene

Genomics for EMX1 Gene

Regulatory Elements for EMX1 Gene

Genomic Location for EMX1 Gene

72,916,260 bp from pter
72,936,071 bp from pter
19,812 bases
Plus strand

Genomic View for EMX1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for EMX1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EMX1 Gene

Proteins for EMX1 Gene

  • Protein details for EMX1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Homeobox protein EMX1
    Protein Accession:
    Secondary Accessions:
    • Q0D2P0
    • Q53T30
    • Q86XB0

    Protein attributes for EMX1 Gene

    257 amino acids
    Molecular mass:
    28039 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAH45762.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for EMX1 Gene


neXtProt entry for EMX1 Gene

Proteomics data for EMX1 Gene at MOPED

Post-translational modifications for EMX1 Gene

No Post-translational modifications

Other Protein References for EMX1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for EMX1 Gene

Domains for EMX1 Gene

Gene Families for EMX1 Gene

  • NKL :Homeoboxes / ANTP class : NKL subclass

Suggested Antigen Peptide Sequences for EMX1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Q04741
  • Contains 1 homeobox DNA-binding domain.
  • Belongs to the EMX homeobox family.
genes like me logo Genes that share domains with EMX1: view

Function for EMX1 Gene

Molecular function for EMX1 Gene

GENATLAS Biochemistry: Drosophila empty spiracles (ems) homolog 1,Dres93,mouse homolog expressed in optic cup in early embryo (E9,5),homeo domain encoding gene involved in brain development
UniProtKB/Swiss-Prot Function: Transcription factor, which in cooperation with EMX2, acts to generate the boundary between the roof and archipallium in the developing brain. May function in combinations with OTX1/2 to specify cell fates in the developing central nervous system

Gene Ontology (GO) - Molecular Function for EMX1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding --
GO:0005515 protein binding IPI 20887964
GO:0043565 sequence-specific DNA binding IEA --
genes like me logo Genes that share ontologies with EMX1: view
genes like me logo Genes that share phenotypes with EMX1: view

Animal Models for EMX1 Gene

MGI Knock Outs for EMX1:

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for EMX1 Gene

Localization for EMX1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EMX1 Gene

Nucleus. Cytoplasm. Note=Might be shuttling between the nucleus and the cytoplasm.

Subcellular locations from

Jensen Localization Image for EMX1 Gene COMPARTMENTS Subcellular localization image for EMX1 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for EMX1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 20887964
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with EMX1: view

Pathways for EMX1 Gene

SuperPathways for EMX1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for EMX1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0007420 brain development --
GO:0009791 post-embryonic development IEA --
GO:0021796 cerebral cortex regionalization IEA --
genes like me logo Genes that share ontologies with EMX1: view

No data available for Pathways by source for EMX1 Gene

Transcripts for EMX1 Gene

Unigene Clusters for EMX1 Gene

Empty spiracles homeobox 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for EMX1 Gene

No ASD Table

Relevant External Links for EMX1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for EMX1 Gene

mRNA expression in normal human tissues for EMX1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for EMX1 Gene

This gene is overexpressed in Kidney - Cortex (18.2), Brain - Frontal Cortex (BA9) (8.4), Brain - Cortex (8.3), and Brain - Anterior cingulate cortex (BA24) (5.5).

SOURCE GeneReport for Unigene cluster for EMX1 Gene Hs.516090

mRNA Expression by UniProt/SwissProt for EMX1 Gene

Tissue specificity: Cerebral cortex
genes like me logo Genes that share expressions with EMX1: view

No data available for Protein expression for EMX1 Gene

Orthologs for EMX1 Gene

This gene was present in the common ancestor of animals.

Orthologs for EMX1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia EMX1 35
  • 99.66 (n)
  • 99.31 (a)
EMX1 36
  • 99 (a)
(Bos Taurus)
Mammalia EMX1 35
  • 94.1 (n)
  • 97.22 (a)
EMX1 36
  • 97 (a)
(Canis familiaris)
Mammalia EMX1 36
  • 100 (a)
LOC483117 35
  • 95.97 (n)
  • 100 (a)
(Mus musculus)
Mammalia Emx1 35
  • 91.18 (n)
  • 96.5 (a)
Emx1 16
Emx1 36
  • 96 (a)
(Monodelphis domestica)
Mammalia -- 36
  • 56 (a)
(Rattus norvegicus)
Mammalia Emx1 35
  • 89.31 (n)
  • 92.07 (a)
(Gallus gallus)
Aves EMX1 35
  • 80.43 (n)
  • 86.07 (a)
EMX1 36
  • 86 (a)
(Anolis carolinensis)
Reptilia EMX1 36
  • 94 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia emx1.2 35
  • 76.25 (n)
  • 84.55 (a)
Str.5241 35
(Danio rerio)
Actinopterygii -- 35
emx1 35
  • 71.01 (n)
  • 76.96 (a)
emx1 36
  • 76 (a)
fruit fly
(Drosophila melanogaster)
Insecta E5 36
  • 22 (a)
ems 36
  • 23 (a)
(Caenorhabditis elegans)
Secernentea ceh-2 36
  • 37 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 37 (a)
Species with no ortholog for EMX1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for EMX1 Gene

Gene Tree for EMX1 (if available)
Gene Tree for EMX1 (if available)

Paralogs for EMX1 Gene

Paralogs for EMX1 Gene

Selected SIMAP similar genes for EMX1 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with EMX1: view

Variants for EMX1 Gene

Sequence variations from dbSNP and Humsavar for EMX1 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs753554 -- 72,934,318(+) TCCCT(A/G)TGGGA utr-variant-3-prime
rs989040 -- 72,918,914(-) CCCAA(A/G)ACAGC intron-variant
rs999494 -- 72,930,266(-) TTTAC(A/G)TCTGC intron-variant
rs1465805 -- 72,932,381(-) ATAGA(A/G)GAAAT intron-variant
rs1561247 -- 72,924,102(+) GAGTG(C/T)GGGGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for EMX1 Gene

Variant ID Type Subtype PubMed ID
nsv874266 CNV Loss 21882294
esv2677197 CNV Deletion 23128226

Relevant External Links for EMX1 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EMX1 Gene

Disorders for EMX1 Gene

No disorders were found for EMX1 Gene.

No data available for UniProtKB/Swiss-Prot for EMX1 Gene

Publications for EMX1 Gene

  1. Chromosome locations of human EMX and OTX genes. (PMID: 7959790) Kastury K. … Boncinelli E. (Genomics 1994) 2 3 23
  2. Two vertebrate homeobox genes related to the Drosophila empty spiracles gene are expressed in the embryonic cerebral cortex. (PMID: 1352754) Simeone A. … Boncinelli E. (EMBO J. 1992) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier L.W. … Wilson R.K. (Nature 2005) 3 4
  5. WDR11, a WD protein that interacts with transcription factor EMX1, is mutated in idiopathic hypogonadotropic hypogonadism and Kallmann syndrome. (PMID: 20887964) Kim H.G. … Layman L.C. (Am. J. Hum. Genet. 2010) 3 4

Products for EMX1 Gene

Sources for EMX1 Gene

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