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

MEX3B Gene

protein-coding   GIFtS: 49
GCID: GC15M082334

mex-3 homolog B (C. elegans)

(Previous name: ring finger and KH domain containing 3 )
(Previous symbol: RKHD3)
 Explore 3 diseases affiliated with
MEX3B via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for MEX3B    

Aliases
for MEX3B gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Mex-3 Homolog B (C. Elegans)1 2     DKFZp434J06171
RKHD31 2 3 5     MEX-3B2
RNF1951 2 3     RNA-Binding Protein MEX3B2
Ring Finger And KH Domain Containing 31 2     KIAA20093
RING Finger Protein 1952 3     RING Finger And KH Domain-Containing Protein 33

External Ids:    HGNC: 252971   Entrez Gene: 842062   Ensembl: ENSG000001834967   OMIM: 6110085   UniProtKB: Q6ZN043   

Export aliases for MEX3B gene to outside databases

Previous GC identifers: GC15M080122 GC15M059092


Summaries
for MEX3B gene

(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 MEX3B:
This gene encodes an RNA-binding phosphoprotein that is part of the MEX3 (muscle excess 3) family of translational
regulators. The encoded protein contains N-terminal nuclear export and nuclear localization signals and is exported
from the cytoplasm to the nucleus. The protein binds to RNA via two KH domains and also colocalizes with MEX3A, Dcp1A
decapping factor and Argonaute proteins within P (processing) bodies. (provided by RefSeq, Oct 2012)

UniProtKB/Swiss-Prot: MEX3B_HUMAN, Q6ZN04
Function: RNA-binding protein. May be involved in post-transcriptional regulatory mechanisms

Gene Wiki entry for MEX3B


Genomic Views
for MEX3B gene

(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_000015.9  NC_018926.1  NT_010194.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the MEX3B gene promoter:
         HOXA9B   HOXA9   Max1   AhR   Pax-5   p300   Pax-2   Pax-2a   Arnt   c-Myc   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: MEX3B promoter sequence
   Search SABiosciences Chromatin IP Primers for MEX3B

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat MEX3B


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

Entrez Gene cytogenetic band: 15q25.2   Ensembl cytogenetic band:  15q25.2   HGNC cytogenetic band: 15q25.1

MEX3B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
MEX3B gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15M082334:  view genomic region     (about GC identifiers)

Start:
 82,334,119 bp from pter      End:
 82,338,482 bp from pter
Size:
 4,364 bases      Orientation:
 minus strand

Proteins
for MEX3B gene

(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: MEX3B_HUMAN, Q6ZN04 (See protein sequence)
Recommended Name: RNA-binding protein MEX3B  
Size: 569 amino acids; 58832 Da
Subcellular location: Nucleus. Cytoplasm. Cytoplasm, P-body. Cytoplasmic granule. Note=Predominantly expressed in the
cytoplasm and shuttles between the cytoplasm and the nucleus through the CRM1 export pathway. Localization to P-bodies
is dependent on 14-3-3
Sequence caution: Sequence=BAC23105.1; Type=Erroneous translation; Note=Wrong choice of CDS;
Secondary accessions: Q4G0W1 Q8IVG2 Q9H0J0
Alternative splicing: 2 isoforms:  Q6ZN04-1   Q6ZN04-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for MEX3B: NX_Q6ZN04

Post-translational modifications:

  • Phosphorylation at Ser-462 creates a docking site for 14-3-3, which stabilizes the protein and modulates its ability to
    • bind RNA1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q6ZN04

    • MEX3B Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_115622.2  
    ENSEMBL proteins: 
     ENSP00000329918   ENSP00000456938  

    Human Recombinant Protein Products: 
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    Uscn Proteins for MEX3B

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000932cytoplasmic mRNA processing body IEA--
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--


    MEX3B for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for MEX3B

    Protein Domains /
    Families
    for MEX3B gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    MEX3B for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR001841 Znf_RING
     IPR004087 KH_dom
     IPR013083 Znf_RING/FYVE/PHD
     IPR004088 KH_dom_type_1

    Graphical View of Domain Structure for InterPro Entry Q6ZN04

    ProtoNet protein and cluster: Q6ZN04

    1 Blocks protein family: IPB001841 Zn-finger

    UniProtKB/Swiss-Prot: MEX3B_HUMAN, Q6ZN04
    Domain: Binds RNA through its KH domains
    Similarity: Contains 2 KH domains
    Similarity: Contains 1 RING-type zinc finger


    Function
    for MEX3B gene

    (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: MEX3B_HUMAN, Q6ZN04
    Function: RNA-binding protein. May be involved in post-transcriptional regulatory mechanisms

    miRNA
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    hsa-miR-607 hsa-miR-300 hsa-miR-374a hsa-miR-30d hsa-miR-1273d hsa-miR-30a hsa-miR-3613-3p hsa-miR-200b
    SwitchGear 3'UTR luciferase reporter plasmid: MEX3B 3' UTR sequence
    Inhib. RNA
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    Gene Editing
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    Clone
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    Cell Line
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    Search LifeMap BioReagents cell lines for MEX3B

    In Situ Assay
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    Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003723RNA binding IEA--
    GO:0005509calcium ion binding ISS--
    GO:0008270zinc ion binding IEA--


    MEX3B for ontologies           About GeneDecksing



    Pathways & Interactions
    for MEX3B gene

    (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 MEX3B

    STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

    5/9 Interacting proteins for MEX3B (Q6ZN042, 3 ENSP000003299184) via UniProtKB, MINT, STRING, and/or I2D (see all 9)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBE2D3P610772, 3, ENSP000003497224MINT-64939 MINT-8276108 I2D: score=5 STRING: ENSP00000349722
    SNUPNO951492, 3, ENSP000003098314MINT-8271883 I2D: score=2 STRING: ENSP00000309831
    NUDT3O959892, 3MINT-8264852 I2D: score=2 
    RAP1GAPP477363, ENSP000003638974I2D: score=4 STRING: ENSP00000363897
    SMAD4Q134853, ENSP000003415514I2D: score=3 STRING: ENSP00000341551
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006468protein phosphorylation ISS--
    GO:0046777protein autophosphorylation ISS--


    MEX3B for ontologies           About GeneDecksing



    Drugs & Compounds
    for MEX3B gene

    (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 MEX3B
    Search CenterWatch for drugs/clinical trials and news about MEX3B 

    Transcripts
    for MEX3B gene

    (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 MEX3B gene: 
    NM_032246.4  

    Unigene Cluster for MEX3B:

    Mex-3 homolog B (C. elegans)
    Hs.744275  [show with all ESTs]
    Unigene Representative Sequence: NM_032246
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000329713(uc002bgq.1) ENST00000558133

    miRNA
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    8/76 QIAGEN miScript miRNA Assays for microRNAs that regulate MEX3B (see all 76):
    hsa-miR-607 hsa-miR-300 hsa-miR-374a hsa-miR-30d hsa-miR-1273d hsa-miR-30a hsa-miR-3613-3p hsa-miR-200b
    SwitchGear 3'UTR luciferase reporter plasmid: MEX3B 3' UTR sequence
    Inhib. RNA
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    Primer
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    Additional cDNA sequence: 

    AK094145.1 AK094633.1 AK131424.1 AL136778.1 AY950678.1 BC036211.1 BC111545.1 

    2 DOTS entries:

    DT.97773326  DT.97769376 

    24/50 AceView cDNA sequences (see all 50):

    AK094633 AB095929 BM698334 BM667045 NM_032246 AI039472 CA449423 AA813239 
    AK131424 CR605617 BG503360 BU570431 AI885956 AK094145 AL136778 AI218507 
    BU501483 AA405662 BX092494 BX107789 AI218506 AA598858 AA770412 BC036211 

    GeneLoc Exon Structure


    Expression
    for MEX3B gene

    (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

    MEX3B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GTCAAATACT

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

    MEX3B 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)
    LimbZeugopodMesenchymal Condensate CellsBone, Cartilage
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Posterior foregut-like cells (A scalable, suspensi...)

    See MEX3B Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for MEX3B

    SOURCE GeneReport for Unigene cluster: Hs.744275

    UniProtKB/Swiss-Prot: MEX3B_HUMAN, Q6ZN04
    Tissue specificity: Highest levels found in fetal brain and testis. Detected in the adult intestinal epithelium,
    specifically in goblet cell at protein level

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    In Situ
    Assay Products:     
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    Orthologs
    for MEX3B gene

    (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 MEX3B gene from 6/16 species (see all 16)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves MEX3B6
    		 Uncharacterized protein
    		 59(a)
    		 1 ↔ 1
    		 10(13459997-13478136)
    lizard
    (Anolis carolinensis)    		 Reptilia MEX3B6
    		 --
    		 69(a)
    		 1 ↔ 1
    		 GL343894.1(4724-6148)
    African clawed frog
    (Xenopus laevis)    		 Amphibia BX844837.12   -- 82.48(n)    BX844837.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii mex3b1 mex-3 homolog B (C. elegans) 74.22(n)
    81.57(a)    		   569582  NM_001080993.1  NP_001074462.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta CG113606
    		 --
    		 31(a)
    		 possible ortholog
    		 4(691768-711276)
    worm
    (Caenorhabditis elegans)    		 Secernentea mex-36
    		 Muscle EXcess family member (mex-3)
    		 33(a)
    		 possible ortholog
    		 I(127297-134065)


    ENSEMBL Gene Tree for MEX3B (if available)
    TreeFam Gene Tree for MEX3B (if available) 

    Paralogs
    for MEX3B gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for MEX3B gene
    MEX3A2  MEX3C2  MEX3D2  
    4 SIMAP similar genes for MEX3B using alignment to 1 protein entry:     MEX3B_HUMAN:
    RKHD1    MEX3D    MEX3C    MEX3A

    MEX3B for paralogs           About GeneDecksing



    Genomic Variants
    for MEX3B gene

    (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

    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 1 variation for MEX3B
         1 CNV: 5326
    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing MEX3B
    DNA2.0 Custom Variant and Variant Library Synthesis for MEX3B

    Disorders / Diseases
    for MEX3B gene

    (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
    MEX3B for disorders           About GeneDecksing

    OMIM gene information: 611008    OMIM disorders: --

    3 diseases for MEX3B:    About MalaCards
    cerebellar ataxia    ataxia    neuronitis


    Export disorders for MEX3B gene to outside databases

    Publications
    for MEX3B gene

    (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 MEX3B gene, integrated from 9 sources (see all 20):
    (articles sorted by number of sources associating them with MEX3B)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification and characterization of human Mex-3 proteins, a novel family of evolutionarily conserved RNA-binding proteins differentially localized to processing bodies. (PubMed id 17267406)1, 2, 3 Buchet-Poyau K.... Billaud M. (2007)
    2. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (2001)
    3. Interaction with 14-3-3 adaptors regulates the sorting of hMex-3B RNA-binding protein to distinct classes of RNA granules. (PubMed id 18779327)1, 2 Courchet J....Billaud M. (2008)
    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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    6. Identification of novel ATP13A2 interactors and their role in a-synuclein misfolding and toxicity. (PubMed id 22645275)1 Usenovic M....Krainc D. (2012)
    7. A directed protein interaction network for investigat ing intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (2011)
    8. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    9. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    10. CAMOS, a nonprogressive, autosomal recessive, congeni tal cerebellar ataxia, is caused by a mutant zinc-finger protein, ZNF592. (PubMed id 20531441)1 Nicolas E....Delague V. (2010)

    External Searches for MEX3B gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
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    Genome Databases showing MEX3B gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 84206 HGNC: 25297 AceView: RKHD3 Ensembl:ENSG00000183496 euGenes: HUgn84206
    ECgene: MEX3B H-InvDB: MEX3B

    Other Databases showing MEX3B gene

    (According to HUGE)
    About This Section
    HUGE: KIAA2009

    Specialized Databases showing MEX3B gene

    (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 MEX3B Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for MEX3B gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for MEX3B gene:
    Search GeneIP for patents involving MEX3B

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



    Products
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     MEX3B Proteins, Antibodies, CLIAs, and ELISAs
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