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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

GCM1 Gene

protein-coding   GIFtS: 52
GCID: GC06M052991

glial cells missing homolog 1 (Drosophila)

(Previous name: glial cells missing (Drosophila) homolog a )
(Previous symbol: GCMA)
 Explore 7 diseases affiliated with
GCM1 via our new
 Human Malady Compendium 
Biological research products
for GCM1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Glial Cells Missing Homolog 1 (Drosophila)1 2     Glial Cells Missing (Drosophila) Homolog A1
GCMA1 2 3     Chorion-Specific Transcription Factor GCMa2
HGCMa1     Glial Cells Missing Homolog 13
GCM Motif Protein 12 3     

External Ids:    HGNC: 41971   Entrez Gene: 85212   Ensembl: ENSG000001372707   OMIM: 6037155   UniProtKB: Q9NP623   

Export aliases for GCM1 gene to outside databases

Previous GC identifers: GC06M052993 GC06M053039 GC06M053099 GC06M052823


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for GCM1:
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)

UniProtKB/Swiss-Prot: GCM1_HUMAN, Q9NP62
Function: 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


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000006.11  NC_018917.1  NT_007592.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the GCM1 gene promoter:
         Pbx1a   AML1a   GATA-1   MEF-2A   RORalpha1   AREB6   ZID   aMEF-2   ATF6   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidGCM1 promoter sequence
   Search SABiosciences Chromatin IP Primers for GCM1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat GCM1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 6p12.1   Ensembl cytogenetic band:  6p12.1   HGNC cytogenetic band: 6p21-p12

GCM1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
GCM1 gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06M052991:  view genomic region     (about GC identifiers)

Start:
52,991,759 bp from pter      End:
53,013,627 bp from pter
Size:
21,869 bases      Orientation:
minus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: GCM1_HUMAN, Q9NP62 (See protein sequence)
Recommended Name: Chorion-specific transcription factor GCMa  
Size: 436 amino acids; 49268 Da
Subcellular location: Nucleus (Potential)
Secondary accessions: Q4VAQ7 Q5T0X0 Q99468 Q9P1X3

Explore the universe of human proteins at neXtProt for GCM1: NX_Q9NP62

Post-translational modifications:

  • Polyubiquitinated in the presence of UBE2D2 and FBXW2 (in vitro)1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9NP62

  • GCM1 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_003634.2  
    ENSEMBL proteins: 
     ENSP00000259803  

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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for GCM1

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus TAS8962155
    GO:0005667transcription factor complex IDA15385555


    GCM1 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for GCM1


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    GCM1 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR003902 Tscrpt_reg_GCM_motif

    Graphical View of Domain Structure for InterPro Entry Q9NP62

    ProtoNet protein and cluster: Q9NP62

    UniProtKB/Swiss-Prot: GCM1_HUMAN, Q9NP62
    Similarity: Contains 1 GCM DNA-binding domain


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: GCM1_HUMAN, Q9NP62
    Function: Transcription factor that is necessary for placental development. Binds to the trophoblast-specific element 2
    (TSE2) of the aromatase gene enhancer

    miRNA
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    hsa-miR-548k hsa-miR-1236 hsa-miR-545 hsa-miR-570
    SwitchGear 3'UTR luciferase reporter plasmidGCM1 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for GCM1 (see all 7)
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for GCM1

    Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0003700sequence-specific DNA binding transcription factor activity IDA15385555
    GO:0008134transcription factor binding IPI15385555
    GO:0008270zinc ion binding IEA--


    GCM1 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for GCM1:
     Synthetic lethal with c-Myc af 

    Animal Models:
         Mouse knock-out Gcm1tm1Hoso for GCM1
         8 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Gcm1):
     cardiovascular system  cellular  embryogenesis  growth/size  mortality/aging 
     nervous system  normal  other 

    GCM1 for phenotypes           About GeneDecksing


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Human Early Embryo Development
    Human Early Embryo Development1.00

    1 Downloadable PowerPoint Slide of QIAGEN Pathway Central Maps for GCM1
        Human Early Embryo Development


    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for GCM1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 14)

    5/14 Interacting proteins for GCM1 (Q9NP623 ENSP000002598034) via UniProtKB, MINT, STRING, and/or I2D (see all 14)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CUL1Q136163, ENSP000003268044I2D: score=2 STRING: ENSP00000326804
    HDAC4P565243, ENSP000002646064I2D: score=2 STRING: ENSP00000264606
    UBE2IP632793, ENSP000003248974I2D: score=1 STRING: ENSP00000324897
    UBCP0CG483, ENSP000003448184I2D: score=1 STRING: ENSP00000344818
    CREBBPQ927933, ENSP000002623674I2D: score=2 STRING: ENSP00000262367
    About this table

    Gene Ontology (GO): 5/6 biological process terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006351transcription, DNA-dependent IEA--
    GO:0006355regulation of transcription, DNA-dependent IDA15385555
    GO:0009653anatomical structure morphogenesis TAS8962155
    GO:0060018astrocyte fate commitment IEA--
    GO:0060670branching involved in labyrinthine layer morphogenesis IEA--


    GCM1 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    GCM1 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for GCM1
    1 Novoseek chemical compound relationship for GCM1 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    forskolin 42.1 1 16528103 (1)

    Search CenterWatch for drugs/clinical trials and news about GCM1 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for GCM1 gene: 
    NM_003643.3  

    Unigene Cluster for GCM1:

    Glial cells missing homolog 1 (Drosophila)
    Hs.28346  [show with all ESTs]
    Unigene Representative Sequence: NM_003643
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000259803(uc003pbp.3 uc010jzr.2)

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    hsa-miR-548k hsa-miR-1236 hsa-miR-545 hsa-miR-570
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    Inhib. RNA
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat GCM1
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat GCM1

    Additional cDNA sequence: 

    AB026493.1 AB041714.1 BC096288.1 BC096289.1 D88613.1 

    2 DOTS entries:

    DT.425005  DT.424053 

    24/26 AceView cDNA sequences (see all 26):

    AI288224 AI219562 AB026493 AI192428 NM_003643 AI800327 AA330932 AB041714 
    C16723 BF109347 BG434356 D88613 BQ367968 BF988772 C16815 R82262 
    T46962 R82207 R79118 R79119 R62687 R62635 BQ367427 BF839018 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    GCM1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CAATAAACAA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    GCM1 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 2 LifeMap Cells 
    NameCategory
    Syncytiotrophoblast-like cells (Generation of syncyt...)
    Trophoblast-like cells (Generation of tropho...)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See GCM1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for GCM1

    SOURCE GeneReport for Unigene cluster: Hs.28346

    UniProtKB/Swiss-Prot: GCM1_HUMAN, Q9NP62
    Tissue specificity: Placenta specific

        SABiosciences Expression via Pathway-Focused PCR Array including GCM1: 
              Embryonic Stem Cells in human mouse rat

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for GCM1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for GCM1 gene from 5/15 species (see all 15)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Gcm11 , 5 glial cells missing homolog 1 (Drosophila)1, 5 78.9(n)1
    73.62(a)1
      9 (43.49 cM)5
    145311  NM_008103.31  NP_032129.21 
     780519585 
    chicken
    (Gallus gallus)
    Aves GCM11 glial cells missing homolog 1 (Drosophila) 59.29(n)
    54.55(a)
      404300  NM_206980.1  NP_996863.1 
    lizard
    (Anolis carolinensis)
    Reptilia GCM16
    --
    79(a)
    1 ↔ 1
    1(151588795-151593472)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.165622 Xenopus laevis transcribed sequence with weak similarity more 76.5(n)    BJ063134.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta gcm6
    gcm26
    gcm2
    20(a)
    18(a)
    many ↔ many
    many ↔ many
    2L(9579449-9581742)
    2L(9608479-9612706)


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for GCM1 gene
    GCM22  
    1 SIMAP similar gene for GCM1 using alignment to 1 protein entry:     GCM1_HUMAN:
    GCM2

    GCM1 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for GCM1
    PGOHUM00000234280


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/477 NCBI SNPs in GCM1 are shown (see all 477    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs178167321,2
    C,F,H,--52991298(+) TCTTGT/CCACTT 1 -- ds50016Minor allele frequency- C:0.02NA NS EA 500
    rs1810397271,2
    --52991335(+) CAAATA/CTAAAT 1 -- ds50010--------
    rs69333221,2
    C,F,A,H,--52991358(+) GGACTA/GTTTAA 1 -- ds500117Minor allele frequency- G:0.08NS EA NA WA 2338
    rs1839825181,2
    --52991361(+) CTATTA/TAATTA 1 -- ds50010--------
    rs1449925851,2
    C,--52991519(+) TCTCT-/TATATAT 1 -- ds50010--------
    rs2020713881,2
    --52991520(+) CTCTT-/ATATATAT 1 -- ds50010--------
    rs1886568881,2
    --52991547(+) TATATA/GTAAAA 1 -- ds50010--------
    rs1814866301,2
    --52991614(+) TGCAGA/GGAACA 1 -- ds50010--------
    rs94743961,2
    C,F,A,H,--52991621(+) AACATT/CTCTAA 1 -- ds500117Minor allele frequency- C:0.12NS EA NA WA CSA 2222
    rs351144681,2
    --52991624(+) ATTTCC/TAATAT 1 -- ds50010--------

    HapMap Linkage Disequilibrium report for GCM1 (52991759 - 53013627 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for GCM1: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing GCM1
    DNA2.0 Custom Variant and Variant Library Synthesis for GCM1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    GCM1 for disorders           About GeneDecksing

    OMIM gene information: 603715    OMIM disorders: --

    7 diseases for GCM1:    About MalaCards
    pre-eclampsia    labyrinthitis    eclampsia    choriocarcinoma
    influenza    nephropathy    hypoxia

    1 disease from the University of Copenhagen DISEASES database for GCM1:
    pre-eclampsia
    Human Genome Epidemiology (HuGE) Navigator: GCM1 (2 documents)

    Export disorders for GCM1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for GCM1 gene, integrated from 9 sources (see all 41):
    (articles sorted by number of sources associating them with GCM1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The gcm-motif: a novel DNA binding motif conserved in Drosophila and mammals. (PubMed id 8962155)1, 2, 3 Akiyama Y.... Hotta Y. (1996)
    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. (PubMed id 18703417)1, 2, 9 Chiang M.H....Chen H. (2008)
    3. Genomic organization, chromosomal localization, and the complete 22 kb DNA sequence of the human GCMa/GCM1, a placenta-specific transcription factor gene. (PubMed id 11071865)1, 2, 9 Yamada K.... Okazaki T. (2000)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    5. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (2003)
    6. A GCM motif protein is involved in placenta-specific expression of human aromatase gene. (PubMed id 10542267)1, 2 Yamada K.... Okazaki T. (1999)
    7. FBW2 targets GCMa to the ubiquitin-proteasome degradation system. (PubMed id 15640526)1, 9 Yang C.S....Chen H. (2005)
    8. Stimulation of GCMa transcriptional activity by cyclic AMP/protein kinase A signaling is attributed to CBP-mediated acetylation of GCMa. (PubMed id 16166624)1, 9 Chang C.W....Chen H. (2005)
    9. Decreased placental GCM1 (glial cells missing) gene expression in pre-eclampsia. (PubMed id 15081636)1, 9 Chen C.P....Chen H. (2004)
    10. Mechanism of hypoxia-induced GCM1 degradation: implic ations for the pathogenesis of preeclampsia. (PubMed id 19416964)1, 9 Chiang M.H....Chen H. (2009)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 8521 HGNC: 4197 AceView: GCM1 Ensembl:ENSG00000137270 euGenes: HUgn8521
    ECgene: GCM1 H-InvDB: GCM1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
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    About This Section
    NameDescription
    PharmGKB entry for GCM1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
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    Patent Information for GCM1 gene:
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