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

GRAMD1A Gene

protein-coding   GIFtS: 43
GCID: GC19P035679

GRAM domain containing 1A

(Previous name: KIAA1533 )
(Previous symbol: KIAA1533)
  Search for GRAMD1A
in our new
 Human Malady Compendium 
Biological research products
for GRAMD1A
    

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

Aliases
GRAM Domain Containing 1A1 2
KIAA15331 2 3
FLJ903461
GRAM Domain-Containing Protein 1A2

External Ids:    HGNC: 293051   Entrez Gene: 576552   Ensembl: ENSG000000893517   UniProtKB: Q96CP63   

Export aliases for GRAMD1A gene to outside databases

Previous GC identifers: GC19P040174 GC19P035486 GC19P031999 GC19P035533


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

  --

(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_000019.9  NC_018930.1  NT_011109.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the GRAMD1A gene promoter:
         ATF-2   CRE-BP1   HEN1   CREB   Ik-2   FOXO4   deltaCREB   Hand1   Pax-4a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): GRAMD1A promoter sequence
   Search SABiosciences Chromatin IP Primers for GRAMD1A

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat GRAMD1A


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

Entrez Gene cytogenetic band: 19q13.13   Ensembl cytogenetic band:  19q13.11   HGNC cytogenetic band: 19q13.13

GRAMD1A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
GRAMD1A gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P035679:  view genomic region     (about GC identifiers)

Start:
35,491,227 bp from pter      End:
35,517,373 bp from pter
Size:
26,147 bases      Orientation:
plus 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: GRM1A_HUMAN, Q96CP6 (See protein sequence)
Recommended Name: GRAM domain-containing protein 1A  
Size: 724 amino acids; 80680 Da
Subcellular location: Membrane; Single-pass membrane protein (Potential)
Secondary accessions: A6NKY7 Q8NC77 Q9P1Z5
Alternative splicing: 3 isoforms:  Q96CP6-1   Q96CP6-2   Q96CP6-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for GRAMD1A: NX_Q96CP6

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q96CP6

  • GRAMD1A Protein expression data from MOPED and PaxDb:    About this image 
    GRAMD1A Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001129671.1  NP_065946.2  

    ENSEMBL proteins: 
     ENSP00000441032   ENSP00000439267   ENSP00000423728  

    Human Recombinant Protein Products for GRAMD1A: 
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for GRAMD1A

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane IEA--

    GRAMD1A for ontologies           About GeneDecksing



    GRAMD1A Antibody Products: 
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    Uscn ELISAs and CLIAs for GRAMD1A


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

    GRAMD1A for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR004182 GRAM

    Graphical View of Domain Structure for InterPro Entry Q96CP6

    ProtoNet protein and cluster: Q96CP6

    UniProtKB/Swiss-Prot: GRM1A_HUMAN, Q96CP6
    Similarity: Contains 1 GRAM domain


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

    Animal Models:
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for GRAMD1A 

    miRNA
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    8/21 QIAGEN miScript miRNA Assays for microRNAs that regulate GRAMD1A (see all 21):
    hsa-miR-323-3p hsa-miR-3194-5p hsa-miR-106a hsa-miR-374a hsa-miR-4260 hsa-miR-519a hsa-miR-4267 hsa-miR-374c
    SwitchGear 3'UTR luciferase reporter plasmidGRAMD1A 3' UTR sequence
    Inhib. RNA
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    Clone
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for GRAMD1A


    (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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for GRAMD1A

    1 Interacting protein for GRAMD1A (Q96CP63) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    RPS6KB1P234433I2D: score=1 
    About this table

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

    Browse Tocris compounds for GRAMD1A
    Search CenterWatch for drugs/clinical trials and news about GRAMD1A / GRM1A 

    (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, Sirion Biotech, 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 GRAMD1A gene (2 alternative transcripts): 
    NM_001136199.1  NM_020895.3  

    Unigene Cluster for GRAMD1A:

    GRAM domain containing 1A
    Hs.515351  [show with all ESTs]
    Unigene Representative Sequence: AK097215
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000317991(uc002nxi.1 uc010xse.1 uc010xsf.1) ENST00000411896(uc002nxk.2)
    ENST00000504615(uc002nxl.2 uc002nxn.1)

    miRNA
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    8/21 QIAGEN miScript miRNA Assays for microRNAs that regulate GRAMD1A (see all 21):
    hsa-miR-323-3p hsa-miR-3194-5p hsa-miR-106a hsa-miR-374a hsa-miR-4260 hsa-miR-519a hsa-miR-4267 hsa-miR-374c
    SwitchGear 3'UTR luciferase reporter plasmidGRAMD1A 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for GRAMD1A (see all 7)
    OriGene shRNA RFP: GRAMD1A
    Browse OriGene siRNA
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat GRAMD1A
    Sirion Biotech Custom design and validation of potent shRNA sequences against GRAMD1A 
    Clone
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    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for GRAMD1A (see all 5)
    OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for GRAMD1A (see all 3)
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector (see all 2): GRAMD1A (NM_001136199)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat GRAMD1A 
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat GRAMD1A
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat GRAMD1A

    Additional cDNA sequence: 

    AB040966.1 AK026064.1 AK074827.1 AK074864.1 AK074914.1 AK093555.1 AK097215.1 BC014077.2 
    BC041618.1 

    23 DOTS entries:

    DT.214951  DT.100822719  DT.100030331  DT.100030330  DT.100822723  DT.100822722  DT.95159036  DT.100822716 
    DT.92434709  DT.100822718  DT.100822724  DT.91788216  DT.95123137  DT.100000120  DT.121495209  DT.121495228 
    DT.70105069  DT.75178604  DT.75178964  DT.75119439  DT.86849125  DT.91659503  DT.97773700 

    24/307 AceView cDNA sequences (see all 307):

    BM553858 BU731181 BE792840 BQ917714 CD368895 BU737871 BX115368 BP334342 
    BF195221 BU174983 BM787373 BE910346 CR601407 BM561402 BX432972 BM746370 
    BQ644826 BF433795 BE888512 BQ649454 CD367242 BM679722 BQ892925 BI913537 

    GeneLoc Exon Structure

    5/10 Alternative Splicing Database (ASD) splice patterns (SP) for GRAMD1A (see all 10)    About this scheme

    ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b ^ 15a · 15b ^ 16 ^ 17 ^ 18 ^
    SP1:                          -     -     -           -                       -                 -                                   -                           
    SP2:                                                                          -                 -     -                             -                           
    SP3:                                                                                                                                                            
    SP4:                                      -                                                                                                                     
    SP5:                                                                                                                                                            

    ExUns: 19 ^ 20 ^ 21a · 21b ^ 22a · 22b ^ 23
    SP1:                                -         
    SP2:                                -         
    SP3:                                -         
    SP4:                                          
    SP5:                                          


    ECgene alternative splicing isoforms for GRAMD1A

    (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

    GRAMD1A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GACAGATGGA
    GRAMD1A Expression
    About this image

    GRAMD1A expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table

    1 LifeMap In Vivo Development Anatomical Compartment/Cell 
    Tissue Anatomical Compartment CellCategory (developmental path)
    LiverLiver LobuleLiver
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See GRAMD1A Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for GRAMD1A

    SOURCE GeneReport for Unigene cluster: Hs.515351
        SABiosciences Custom PCR Arrays for GRAMD1A
    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for GRAMD1A

    (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 eukaryotes.

    Orthologs for GRAMD1A gene from 6/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    lizard
    (Anolis carolinensis)
    Reptilia GRAMD1A6
    --
    65(a)
    1 ↔ 1
    GL343514.1(82341-142933)
    zebrafish
    (Danio rerio)
    Actinopterygii gramd1a1 GRAM domain containing 1A 59.16(n)
    54.97(a)
      555994  XM_678684.5  XP_683776.5 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG302846
    CG343946
    --
    19(a)
    16(a)
    many ↔ many
    many ↔ many
    2R(17538325-17539504)
    2L(3358640-3373372)
    worm
    (Caenorhabditis elegans)
    Secernentea ZC328.36
    Protein ZC328.3, isoform b
    21(a)
    possible ortholog
    I(6409062-6416885)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons VAD11 GRAM domain family protein 41.22(n)
    33(a)
      839232  NM_100092.2  NP_171714.2 
    rice
    (Oryza sativa)
    Liliopsida Os07g04916001 hypothetical protein   --   4343272  NM_001066214.1  NP_001059679.1 


    ENSEMBL Gene Tree for GRAMD1A (if available)
    TreeFam Gene Tree for GRAMD1A (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for GRAMD1A gene
    GRAMD1C2  GRAMD22  GRAMD32  GRAMD1B2  
    2 SIMAP similar genes for GRAMD1A using alignment to 6 protein entries:     GRM1A_HUMAN (see all proteins):
    GRAMD1B    GRAMD1C

    GRAMD1A for paralogs           About GeneDecksing



    (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

    10/575 NCBI SNPs in GRAMD1A are shown (see all 575    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1449901191,2
    --35489270(+) TGGTGC/TGATCC 2 -- us2k10--------
    rs1486767161,2
    --35489448(+) GTGATC/TCACCC 2 -- us2k10--------
    rs781012091,2
    F--35489705(+) GGCACG/AGCGAT 2 -- us2k11Minor allele frequency- A:0.08WA 118
    rs1995800991,2
    --35489711(+) GCGAT-/AGGGGG 2 -- us2k10--------
    rs1825308961,2
    --35489713(+) GATAGC/GGGGGG 2 -- us2k10--------
    rs621221471,2
    C--35489748(+) CAGTGC/TAAAGG 2 -- us2k13Minor allele frequency- T:0.10NA EA 242
    rs1422156681,2
    --35489785(+) CTGGTA/GAGTTA 2 -- us2k10--------
    rs1141720421,2
    F--35489806(+) GGGTAG/TGCTGG 2 -- us2k11Minor allele frequency- T:0.02WA 118
    rs1871395331,2
    --35489867(+) CAGGGG/TCCTTG 2 -- us2k10--------
    rs1512251611,2
    --35490001(+) GACAGC/TAGGGG 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for GRAMD1A (35491227 - 35517373 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for GRAMD1A: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing GRAMD1A
    DNA2.0 Custom Variant and Variant Library Synthesis for GRAMD1A

    (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
      --

    (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 GRAMD1A gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with GRAMD1A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Prediction of the coding sequences of unidentified human genes. XVII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10819331)1, 2, 3 Nagase T.... Ohara O. (2000)
    2. Signal sequence and keyword trap in silico for selection of full- length human cDNAs encoding secretion or membrane proteins from oligo- capped cDNA libraries. (PubMed id 16303743)1, 2 Otsuki T....Isogai T. (2005)
    3. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    4. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
    5. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    6. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
    7. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
    8. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    9. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    10. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 57655 HGNC: 29305 AceView: KIAA1533 Ensembl:ENSG00000089351 euGenes: HUgn57655
    ECgene: GRAMD1A H-InvDB: GRAMD1A

    (According to HUGE)
    About This Section
    HUGE: KIAA1533

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for GRAMD1A Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for GRAMD1A gene:
    Search GeneIP for patents involving GRAMD1A

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    GeneCards Homepage - Last full update: 19 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013 , 14 May 2013

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