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Aliases for GCM1 Gene

Aliases for GCM1 Gene

  • Glial Cells Missing Homolog 1 2 3 4 5
  • GCM Motif Protein 1 3 4
  • HGCMa 3 4
  • GCMA 3 4
  • Glial Cells Missing (Drosophila) Homolog A 2
  • Glial Cells Missing Homolog 1 (Drosophila) 2
  • Chorion-Specific Transcription Factor GCMa 3

External Ids for GCM1 Gene

Previous HGNC Symbols for GCM1 Gene

  • GCMA

Previous GeneCards Identifiers for GCM1 Gene

  • GC06M052993
  • GC06M053039
  • GC06M052991
  • GC06M052823

Summaries for GCM1 Gene

Entrez Gene Summary for GCM1 Gene

  • This gene encodes a DNA-binding protein with a gcm-motif (glial cell missing motif). The encoded protein is a homolog of the Drosophila glial cells missing gene (gcm). This protein binds to the GCM-motif (A/G)CCCGCAT, a novel sequence among known targets of DNA-binding proteins. The N-terminal DNA-binding domain confers the unique DNA-binding activity of this protein. [provided by RefSeq, Jul 2008]

GeneCards Summary for GCM1 Gene

GCM1 (Glial Cells Missing Homolog 1) is a Protein Coding gene. Among its related pathways are Human Early Embryo Development. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and RNA polymerase II core promoter proximal region sequence-specific DNA binding. An important paralog of this gene is GCM2.

UniProtKB/Swiss-Prot for GCM1 Gene

  • Transcription factor that is necessary for placental development. Binds to the trophoblast-specific element 2 (TSE2) of the aromatase gene enhancer.

Gene Wiki entry for GCM1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GCM1 Gene

Genomics for GCM1 Gene

Regulatory Elements for GCM1 Gene

Enhancers for GCM1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06G053119 1.2 Ensembl ENCODE 12.2 +28.9 28891 1.8 FOXA2 MLX ARID4B DMAP1 ZNF48 TCF12 SLC30A9 FOS SP5 ZHX2 GCM1 RNU6-464P ENSG00000218713 ICK ENSG00000261745 PIR53393
GH06G053213 0.5 dbSUPER 12.9 -67.3 -67285 4.4 ZNF316 GATA3 ELF1 MAFK ENSG00000218713 GCM1 GC06P053224 PIR36996 GC06P053222
GH06G053218 0.2 dbSUPER 12.2 -71.3 -71292 2.6 ENSG00000218713 GCM1 RNU1-136P GC06M053235
GH06G053134 1 ENCODE 0.4 +13.8 13814 0.3 FOXA2 ATF1 MLX ZFP64 ARID4B DMAP1 ZNF48 TCF12 ZNF121 GATA2 ENSG00000218713 ENSG00000261745 GCM1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around GCM1 on UCSC Golden Path with GeneCards custom track

Genomic Location for GCM1 Gene

Chromosome:
6
Start:
53,126,961 bp from pter
End:
53,148,829 bp from pter
Size:
21,869 bases
Orientation:
Minus strand

Genomic View for GCM1 Gene

Genes around GCM1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GCM1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GCM1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GCM1 Gene

Proteins for GCM1 Gene

  • Protein details for GCM1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NP62-GCM1_HUMAN
    Recommended name:
    Chorion-specific transcription factor GCMa
    Protein Accession:
    Q9NP62
    Secondary Accessions:
    • Q4VAQ7
    • Q5T0X0
    • Q99468
    • Q9P1X3

    Protein attributes for GCM1 Gene

    Size:
    436 amino acids
    Molecular mass:
    49268 Da
    Quaternary structure:
    No Data Available

neXtProt entry for GCM1 Gene

Post-translational modifications for GCM1 Gene

  • Polyubiquitinated in the presence of UBE2D2 and FBXW2 (in vitro).
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for GCM1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for GCM1 Gene

Domains & Families for GCM1 Gene

Protein Domains for GCM1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for GCM1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with GCM1: view

No data available for Gene Families and UniProtKB/Swiss-Prot for GCM1 Gene

Function for GCM1 Gene

Molecular function for GCM1 Gene

UniProtKB/Swiss-Prot Function:
Transcription factor that is necessary for placental development. Binds to the trophoblast-specific element 2 (TSE2) of the aromatase gene enhancer.

Gene Ontology (GO) - Molecular Function for GCM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IDA 15385555
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding IDA 23867755
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding IDA 15385555
GO:0003677 DNA binding TAS 8962155
GO:0003700 transcription factor activity, sequence-specific DNA binding IDA 15385555
genes like me logo Genes that share ontologies with GCM1: view
genes like me logo Genes that share phenotypes with GCM1: view

Animal Models for GCM1 Gene

MGI Knock Outs for GCM1:

Animal Model Products

CRISPR Products

miRNA for GCM1 Gene

miRTarBase miRNAs that target GCM1

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for GCM1 Gene

Localization for GCM1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for GCM1 Gene

Subcellular locations from

COMPARTMENTS
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 GCM1 gene
Compartment Confidence
nucleus 5
extracellular 1

Gene Ontology (GO) - Cellular Components for GCM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS,IDA 23867755
GO:0005667 transcription factor complex IDA 15385555
genes like me logo Genes that share ontologies with GCM1: view

Pathways & Interactions for GCM1 Gene

genes like me logo Genes that share pathways with GCM1: view

Pathways by source for GCM1 Gene

1 Qiagen pathway for GCM1 Gene

Gene Ontology (GO) - Biological Process for GCM1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IDA 15385555
GO:0006366 transcription from RNA polymerase II promoter IDA 23867755
GO:0007275 multicellular organism development IEA --
GO:0009653 anatomical structure morphogenesis TAS 8962155
genes like me logo Genes that share ontologies with GCM1: view

No data available for SIGNOR curated interactions for GCM1 Gene

Drugs & Compounds for GCM1 Gene

(1) Drugs for GCM1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with GCM1: view

Transcripts for GCM1 Gene

mRNA/cDNA for GCM1 Gene

(2) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(26) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for GCM1 Gene

Glial cells missing homolog 1 (Drosophila):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for GCM1 Gene

No ASD Table

Relevant External Links for GCM1 Gene

GeneLoc Exon Structure for
GCM1
ECgene alternative splicing isoforms for
GCM1

Expression for GCM1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GCM1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for GCM1 Gene

This gene is overexpressed in Whole Blood (x20.6), Testis (x6.3), and Kidney - Cortex (x5.6).

Protein differential expression in normal tissues from HIPED for GCM1 Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for GCM1 Gene



Protein tissue co-expression partners for GCM1 Gene

NURSA nuclear receptor signaling pathways regulating expression of GCM1 Gene:

GCM1

SOURCE GeneReport for Unigene cluster for GCM1 Gene:

Hs.28346

mRNA Expression by UniProt/SwissProt for GCM1 Gene:

Q9NP62-GCM1_HUMAN
Tissue specificity: Placenta specific.

Evidence on tissue expression from TISSUES for GCM1 Gene

  • Liver(4)
genes like me logo Genes that share expression patterns with GCM1: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for GCM1 Gene

Orthologs for GCM1 Gene

This gene was present in the common ancestor of animals.

Orthologs for GCM1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia GCM1 34 35
  • 99.77 (n)
dog
(Canis familiaris)
Mammalia GCM1 34 35
  • 86.05 (n)
mouse
(Mus musculus)
Mammalia Gcm1 34 16 35
  • 78.9 (n)
rat
(Rattus norvegicus)
Mammalia Gcm1 34
  • 77.91 (n)
cow
(Bos Taurus)
Mammalia GCM-1 35
  • 75 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia GCM1 35
  • 66 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia GCM1 35
  • 37 (a)
OneToOne
chicken
(Gallus gallus)
Aves GCM1 34 35
  • 59.29 (n)
lizard
(Anolis carolinensis)
Reptilia GCM1 35
  • 65 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia gcm1 34
  • 56.23 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.16562 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007782 34
  • 61.31 (n)
fruit fly
(Drosophila melanogaster)
Insecta gcm 35
  • 23 (a)
ManyToMany
gcm2 35
  • 19 (a)
ManyToMany
Species where no ortholog for GCM1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for GCM1 Gene

ENSEMBL:
Gene Tree for GCM1 (if available)
TreeFam:
Gene Tree for GCM1 (if available)

Paralogs for GCM1 Gene

Paralogs for GCM1 Gene

(1) SIMAP similar genes for GCM1 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for GCM1 Gene

genes like me logo Genes that share paralogs with GCM1: view

Variants for GCM1 Gene

Sequence variations from dbSNP and Humsavar for GCM1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000017172 -- 53,256,623(+) CTGAG(A/T)TTGTA intron-variant
rs1000024893 -- 53,126,575(+) AATAG(G/T)CATGT downstream-variant-500B, utr-variant-3-prime
rs1000038607 -- 53,198,027(+) GGTAA(A/G)AGGGA intron-variant
rs1000046027 -- 53,239,428(+) ACTAT(C/T)GCTGC intron-variant
rs1000053844 -- 53,139,150(+) CTAAA(C/T)AGAAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for GCM1 Gene

Variant ID Type Subtype PubMed ID
nsv1124063 CNV deletion 24896259

Variation tolerance for GCM1 Gene

Residual Variation Intolerance Score: 53.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.29; 25.69% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for GCM1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
GCM1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GCM1 Gene

Disorders for GCM1 Gene

Relevant External Links for GCM1

Genetic Association Database (GAD)
GCM1
Human Genome Epidemiology (HuGE) Navigator
GCM1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
GCM1

No disorders were found for GCM1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GCM1 Gene

Publications for GCM1 Gene

  1. Parallel genotyping of 10,204 single nucleotide polymorphisms to screen for susceptible genes for IgA nephropathy. (PMID: 19890582) Woo K.T. … Chan C.M. (Ann. Acad. Med. Singap. 2009) 3 22 46 64
  2. Ubiquitin-conjugating enzyme UBE2D2 is responsible for FBXW2 (F-box and WD repeat domain containing 2)-mediated human GCM1 (glial cell missing homolog 1) ubiquitination and degradation. (PMID: 18703417) Chiang M.H. … Chen H. (Biol. Reprod. 2008) 3 4 22 64
  3. Genomic organization, chromosomal localization, and the complete 22 kb DNA sequence of the human GCMa/GCM1, a placenta-specific transcription factor gene. (PMID: 11071865) Yamada K. … Okazaki T. (Biochem. Biophys. Res. Commun. 2000) 3 4 22 64
  4. The gcm-motif: a novel DNA binding motif conserved in Drosophila and mammals. (PMID: 8962155) Akiyama Y. … Hotta Y. (Proc. Natl. Acad. Sci. U.S.A. 1996) 2 3 4 64
  5. Transcriptomic and genetic studies identify IL-33 as a candidate gene for Alzheimer's disease. (PMID: 19204726) Chapuis J. … Lambert J.C. (Mol. Psychiatry 2009) 3 46 64

Products for GCM1 Gene

Sources for GCM1 Gene

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