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Aliases for MDGA1 Gene

Aliases for MDGA1 Gene

  • MAM Domain Containing Glycosylphosphatidylinositol Anchor 1 2 3 5
  • Glycosylphosphatidylinositol-MAM 3 4
  • MAM Domain-Containing Protein 3 3 4
  • GPI And MAM Protein 3 4
  • MAMDC3 3 4
  • GPIM 3 4
  • MAM Domain-Containing Glycosylphosphatidylinositol Anchor Protein 1 3

External Ids for MDGA1 Gene

Previous GeneCards Identifiers for MDGA1 Gene

  • GC06U990326
  • GC06M037596
  • GC06M037647
  • GC06M037708
  • GC06M037319
  • GC06M037598
  • GC06M037739
  • GC06M037752
  • GC06M038090

Summaries for MDGA1 Gene

Entrez Gene Summary for MDGA1 Gene

  • This gene encodes a glycosylphosphatidylinositol (GPI)-anchored cell surface glycoprotein that is expressed predominantly in the developing nervous system. In addition to possessing several cell adhesion molecule-like domains, the mature protein has six Ig-like domains, a single fibronectin type III domain, a MAM domain and a C-terminal GPI-anchoring site. Studies in other mammals suggest this protein plays a role in cell adhesion, migration, and axon guidance and, in the developing brain, neuronal migration. In humans, this gene is associated with bipolar disorder and schizophrenia. [provided by RefSeq, Oct 2016]

GeneCards Summary for MDGA1 Gene

MDGA1 (MAM Domain Containing Glycosylphosphatidylinositol Anchor 1) is a Protein Coding gene. Diseases associated with MDGA1 include Bipolar Disorder and Schizophrenia. Among its related pathways are Metabolism of proteins and Post-translational modification- synthesis of GPI-anchored proteins. An important paralog of this gene is MDGA2.

UniProtKB/Swiss-Prot for MDGA1 Gene

  • Required for radial migration of cortical neurons in the superficial layer of the neocortex (By similarity). Plays a role in the formation or maintenance of inhibitory synapses. May function by inhibiting the activity of NLGN2.

Additional gene information for MDGA1 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MDGA1 Gene

Genomics for MDGA1 Gene

GeneHancer (GH) Regulatory Elements for MDGA1 Gene

Promoters and enhancers for MDGA1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J037696 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE dbSUPER 659.9 +1.3 1289 2.4 ARNT NEUROD1 SIN3A ZNF2 ZNF48 GLIS2 KLF7 KLF13 SP3 ZNF610 MDGA1 TBC1D22B C6orf89 GC06M038952
GH06J037704 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 70.9 -6.4 -6353 1.9 ATF1 SIN3A YY1 GLIS2 KLF7 RUNX3 SP3 REST ZNF592 GMEB1 GC06P043175 GC06P043156 MDGA1 TBC1D22B ENSG00000225945
GH06J037628 Enhancer 1 Ensembl ENCODE 35.6 +69.1 69136 2.5 ZNF766 ELK1 FOS CREM NCOA1 CEBPB ELF1 SP1 NFIC SMARCA4 MDGA1 GC06M038952 ENSG00000279942
GH06J037648 Enhancer 0.8 Ensembl ENCODE 34.1 +50.4 50441 1.6 KLF1 USF1 L3MBTL2 NRF1 MAX SP2 BACH1 USF2 POLR2A EGR1 MDGA1 RNF8 GC06M038952 ENSG00000279942
GH06J037679 Enhancer 1.2 FANTOM5 ENCODE dbSUPER 16.7 +18.9 18921 2.1 HDGF PKNOX1 KLF17 BMI1 IRF4 GLIS2 ZNF143 ATF7 IKZF2 RUNX3 MDGA1 GC06M038952
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around MDGA1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the MDGA1 gene promoter:
  • MAZR
  • Elk-1
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • USF1
  • AP-4

Genomic Locations for MDGA1 Gene

Genomic Locations for MDGA1 Gene
68,628 bases
Minus strand
66,799 bases
Minus strand

Genomic View for MDGA1 Gene

Genes around MDGA1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MDGA1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MDGA1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MDGA1 Gene

Proteins for MDGA1 Gene

  • Protein details for MDGA1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    MAM domain-containing glycosylphosphatidylinositol anchor protein 1
    Protein Accession:
    Secondary Accessions:
    • A6NHG0
    • Q8NBE3

    Protein attributes for MDGA1 Gene

    955 amino acids
    Molecular mass:
    105790 Da
    Quaternary structure:
    • Interacts heterophilically through its MAM domain with proteins in axon-rich regions and through its Ig-like domains with proteins in differentiating muscle (By similarity). Interacts (through the Ig-like domains) with NLGN2.
    • Sequence=BAC03502.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for MDGA1 Gene

    Alternative splice isoforms for MDGA1 Gene


neXtProt entry for MDGA1 Gene

Post-translational modifications for MDGA1 Gene

  • Glycosylation at isoforms=2826, isoforms=2747, isoforms=2655, isoforms=2432, isoforms=2331, isoforms=2307, isoforms=2257, isoforms=2247, isoforms=2235, isoforms=290, and isoforms=242
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for MDGA1 Gene

Domains & Families for MDGA1 Gene

Gene Families for MDGA1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with MDGA1: view

No data available for UniProtKB/Swiss-Prot for MDGA1 Gene

Function for MDGA1 Gene

Molecular function for MDGA1 Gene

UniProtKB/Swiss-Prot Function:
Required for radial migration of cortical neurons in the superficial layer of the neocortex (By similarity). Plays a role in the formation or maintenance of inhibitory synapses. May function by inhibiting the activity of NLGN2.

Phenotypes From GWAS Catalog for MDGA1 Gene

Gene Ontology (GO) - Molecular Function for MDGA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with MDGA1: view
genes like me logo Genes that share phenotypes with MDGA1: view

Animal Models for MDGA1 Gene

MGI Knock Outs for MDGA1:

Animal Model Products

  • Taconic Biosciences Mouse Models for MDGA1

Clone Products

  • Addgene plasmids for MDGA1

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for MDGA1 Gene

Localization for MDGA1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for MDGA1 Gene

Cell membrane; Lipid-anchor, GPI-anchor. Note=Associated with lipid rafts.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for MDGA1 gene
Compartment Confidence
plasma membrane 5
extracellular 5
golgi apparatus 2
peroxisome 1
nucleus 1
cytosol 1
lysosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (3)
  • Plasma membrane (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for MDGA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space HDA 22664934
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0031225 anchored component of membrane IEA --
genes like me logo Genes that share ontologies with MDGA1: view

Pathways & Interactions for MDGA1 Gene

genes like me logo Genes that share pathways with MDGA1: view

Interacting Proteins for MDGA1 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
Selected Interacting proteins: Q8NFP4-MDGA1_HUMAN ENSP00000402584 for MDGA1 Gene via IID STRING

Gene Ontology (GO) - Biological Process for MDGA1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001764 neuron migration ISS --
GO:0006501 C-terminal protein lipidation TAS --
GO:0007275 multicellular organism development IEA --
GO:0007399 nervous system development IEA --
GO:0007420 brain development ISS 15019943
genes like me logo Genes that share ontologies with MDGA1: view

No data available for SIGNOR curated interactions for MDGA1 Gene

Drugs & Compounds for MDGA1 Gene

No Compound Related Data Available

Transcripts for MDGA1 Gene

mRNA/cDNA for MDGA1 Gene

Unigene Clusters for MDGA1 Gene

MAM domain containing glycosylphosphatidylinositol anchor 1:
Representative Sequences:

Clone Products

  • Addgene plasmids for MDGA1

Alternative Splicing Database (ASD) splice patterns (SP) for MDGA1 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13a · 13b · 13c ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18a ·
SP2: - -
SP3: -
SP6: - -
SP7: -
SP8: -
SP11: -
SP12: -

ExUns: 18b · 18c ^ 19 ^ 20a · 20b · 20c

Relevant External Links for MDGA1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for MDGA1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for MDGA1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for MDGA1 Gene

This gene is overexpressed in Brain - Cerebellum (x19.2) and Brain - Cerebellar Hemisphere (x16.8).

Protein differential expression in normal tissues from HIPED for MDGA1 Gene

This gene is overexpressed in Fetal Brain (56.4) and Retina (10.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for MDGA1 Gene

Protein tissue co-expression partners for MDGA1 Gene

NURSA nuclear receptor signaling pathways regulating expression of MDGA1 Gene:


SOURCE GeneReport for Unigene cluster for MDGA1 Gene:


mRNA Expression by UniProt/SwissProt for MDGA1 Gene:

Tissue specificity: Has been found in brain, heart, skeletal muscle and kidney. Found to be overexpressed in tumor tissues.

Evidence on tissue expression from TISSUES for MDGA1 Gene

  • Adrenal gland(5)
  • Nervous system(4.8)
  • Bone marrow(4)
genes like me logo Genes that share expression patterns with MDGA1: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for MDGA1 Gene

Orthologs for MDGA1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for MDGA1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia MDGA1 34 33
  • 99.72 (n)
(Canis familiaris)
Mammalia MDGA1 34 33
  • 92.42 (n)
(Bos Taurus)
Mammalia MDGA1 34 33
  • 92.36 (n)
(Mus musculus)
Mammalia Mdga1 16 34 33
  • 89.83 (n)
(Rattus norvegicus)
Mammalia Mdga1 33
  • 89.38 (n)
(Monodelphis domestica)
Mammalia MDGA1 34
  • 78 (a)
(Ornithorhynchus anatinus)
Mammalia MDGA1 34
  • 63 (a)
(Gallus gallus)
Aves MDGA1 34 33
  • 74.53 (n)
(Anolis carolinensis)
Reptilia MDGA1 34
  • 76 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.13549 33
(Danio rerio)
Actinopterygii LOC569180 33
  • 65.07 (n)
MDGA1 34
  • 61 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 33 (a)
Species where no ortholog for MDGA1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for MDGA1 Gene

Gene Tree for MDGA1 (if available)
Gene Tree for MDGA1 (if available)
Evolutionary constrained regions (ECRs) for MDGA1: view image

Paralogs for MDGA1 Gene

Paralogs for MDGA1 Gene

(8) SIMAP similar genes for MDGA1 Gene using alignment to 7 proteins:

  • H0Y4Q2_HUMAN
  • H0YA23_HUMAN
genes like me logo Genes that share paralogs with MDGA1: view

Variants for MDGA1 Gene

Sequence variations from dbSNP and Humsavar for MDGA1 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs864309493 uncertain-significance, Acute megakaryoblastic leukemia, Mediastinal germ cell tumor 37,638,307(-) A/C coding_sequence_variant, downstream_transcript_variant, genic_downstream_transcript_variant, missense_variant, non_coding_transcript_variant
rs864309630 uncertain-significance, not specified 37,644,563(-) G/A coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1000009917 -- 37,686,639(-) C/T intron_variant
rs1000022709 -- 37,652,774(-) C/G intron_variant
rs1000038336 -- 37,679,748(-) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for MDGA1 Gene

Variant ID Type Subtype PubMed ID
nsv958351 CNV deletion 24416366
nsv1015689 CNV gain 25217958
esv27953 CNV loss 19812545
esv2752124 CNV gain 17911159
esv2731934 CNV deletion 23290073
esv2667581 CNV deletion 23128226

Variation tolerance for MDGA1 Gene

Residual Variation Intolerance Score: 18.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.35; 76.84% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for MDGA1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MDGA1 Gene

Disorders for MDGA1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for MDGA1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
bipolar disorder
  • major affective disorder 1
  • sczd
- elite association - COSMIC cancer census association via MalaCards
Search MDGA1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for MDGA1

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with MDGA1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for MDGA1 Gene

Publications for MDGA1 Gene

  1. Characterization of MDGA1, a novel human glycosylphosphatidylinositol-anchored protein localized in lipid rafts. (PMID: 15922729) Díaz-López A … De Juan C (Experimental cell research 2005) 2 3 4 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. WITHDRAWN: Common polymorphisms in the MDGA1 gene are associated with bipolar disorder and schizophrenia in the Chinese Han population. (PMID: 20036297) Li J … Shi Y (Progress in neuro-psychopharmacology & biological psychiatry 2009) 3 44 58
  4. Association analysis of schizophrenia on 18 genes involved in neuronal migration: MDGA1 as a new susceptibility gene. (PMID: 18384059) Kähler AK … Andreassen OA (American journal of medical genetics. Part B, Neuropsychiatric genetics : the official publication of the International Society of Psychiatric Genetics 2008) 3 44 58
  5. Human plasma N-glycoproteome analysis by immunoaffinity subtraction, hydrazide chemistry, and mass spectrometry. (PMID: 16335952) Liu T … Smith RD (Journal of proteome research 2005) 3 4 58

Products for MDGA1 Gene

  • Addgene plasmids for MDGA1

Sources for MDGA1 Gene

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