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

OLFM4 Gene

protein-coding   GIFtS: 48
GCID: GC13P053602

olfactomedin 4

 Explore 14 diseases affiliated with
OLFM4 via our new
 Human Malady Compendium 
Biological research products
for OLFM4
    

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

Aliases
Olfactomedin 41 2     G-CSF-Stimulated Clone 1 Protein2 3
GW1121 2 3     HGC-11
GC11 2     HOLfD1
OlfD1 2     UNQ3622
Antiapoptotic Protein GW1122 3     BA209J19.11
OLM42 3     Olfactomedin-41

External Ids:    HGNC: 171901   Entrez Gene: 105622   Ensembl: ENSG000001028377   OMIM: 6140615   UniProtKB: Q6UX063   

Export aliases for OLFM4 gene to outside databases

Previous GC identifers: GC13P051401 GC13P052500 GC13P034317


(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 OLFM4:
This gene was originally cloned from human myeloblasts and found to be selectively expressed in inflammed colonic
epithelium. This gene encodes a member of the olfactomedin family. The encoded protein is an antiapoptotic factor that
promotes tumor growth and is an extracellular matrix glycoprotein that facilitates cell adhesion. (provided by RefSeq,
Mar 2011)

UniProtKB/Swiss-Prot: OLFM4_HUMAN, Q6UX06
Function: May promote proliferation of pancreatic cancer cells by favoring the transition from the S to G2/M phase. In
myeloid leukemic cell lines, inhibits cell growth and induces cell differentiation and apoptosis. May play a role in
the inhibition of EIF4EBP1 phosphorylation/deactivation. Facilitates cell adhesion, most probably through interaction
with cell surface lectins and cadherin




(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_000013.10  NC_018924.1  NT_024524.14  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the OLFM4 gene promoter:
         LHX3b/Lhx3b   CUTL1   C/EBPalpha   NF-AT   RORalpha2   HSF2   LHX3a/Lhx3a   NF-AT1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidOLFM4 promoter sequence
   Search SABiosciences Chromatin IP Primers for OLFM4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat OLFM4


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

Entrez Gene cytogenetic band: 13q14.3   Ensembl cytogenetic band:  13q14.3   HGNC cytogenetic band: 13q14

OLFM4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
OLFM4 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13P053602:  view genomic region     (about GC identifiers)

Start:
53,602,830 bp from pter      End:
53,626,196 bp from pter
Size:
23,367 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: OLFM4_HUMAN, Q6UX06 (See protein sequence)
Recommended Name: Olfactomedin-4 precursor  
Size: 510 amino acids; 57280 Da
Subunit: Homomultimer; disulfide-linked. Interacts with NDUFA13. Interacts with cell surface lectins (locutions ricinus
communis agglutinin I, concanavalin-A and wheat germ agglutinin) and cadherin
Subcellular location: Secreted, extracellular space. Mitochondrion. Note=Subcellular location is not clearly defined:
has been shown to be secreted (PubMed:16566923), but also in the mitochondrion (PubMed:15059901 and PubMed:20724538),
cytoplasm and plasma membrane (PubMed:20724538) and in the nucleus (PubMed:15059901)
Developmental stage: Elevated expression during the early S phase of the cell cycle, followed by a gradual decrease
during late S phase
Sequence caution: Sequence=AAC72970.1; Type=Erroneous initiation; Note=Translation N-terminally extended;
Sequence=AAC72970.1; Type=Frameshift; Positions=Several;
Secondary accessions: O95362 Q5VWG0 Q86T22

Explore the universe of human proteins at neXtProt for OLFM4: NX_Q6UX06

Post-translational modifications:

  • N-glycosylated1
  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q6UX06

  • OLFM4 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_006409.3  
    ENSEMBL proteins: 
     ENSP00000219022  

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    Uscn Proteins for OLFM4

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space IEA--
    GO:0005739mitochondrion IEA--


    OLFM4 for ontologies           About GeneDecksing



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

    OLFM4 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR003112 Olfac-like

    Graphical View of Domain Structure for InterPro Entry Q6UX06

    ProtoNet protein and cluster: Q6UX06

    1 Blocks protein family: IPB003112 Olfactomedin-like

    UniProtKB/Swiss-Prot: OLFM4_HUMAN, Q6UX06
    Domain: The olfactomedin-like domain is involved in the interaction with cadherin
    Similarity: Contains 1 olfactomedin-like 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: OLFM4_HUMAN, Q6UX06
    Function: May promote proliferation of pancreatic cancer cells by favoring the transition from the S to G2/M phase. In
    myeloid leukemic cell lines, inhibits cell growth and induces cell differentiation and apoptosis. May play a role in
    the inhibition of EIF4EBP1 phosphorylation/deactivation. Facilitates cell adhesion, most probably through interaction
    with cell surface lectins and cadherin
    Induction: By retinoic acid. This induction requires functional NFKB pathway

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    hsa-let-7d hsa-let-7c hsa-miR-486-5p hsa-let-7g hsa-let-7a hsa-miR-558 hsa-miR-186 hsa-miR-98
    SwitchGear 3'UTR luciferase reporter plasmidOLFM4 3' UTR sequence
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    2 GenomeRNAi human phenotypes for OLFM4:
     Increased S DNA content  Increased cell size 

    Animal Models:
         Mouse knock-out Olfm4tm1Gpro for OLFM4
         4 MGI mutant phenotypes (inferred from 1 allele(MGI details for Olfm4):
     digestive/alimentary  hematopoietic system  homeostasis/metabolism  immune system 

    OLFM4 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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for OLFM4

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    4 Interacting proteins for OLFM4 (Q6UX063 ENSP000002190224) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    C3P010243, ENSP000002459074I2D: score=1 STRING: ENSP00000245907
    NDUFA13Q9P0J03I2D: score=1 
    NOD1ENSP000002228234STRING: ENSP00000222823
    NOD2ENSP000003005894STRING: ENSP00000300589
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007155cell adhesion IEA--


    OLFM4 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for OLFM4
    Search CenterWatch for drugs/clinical trials and news about OLFM4 

    (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 OLFM4 gene: 
    NM_006418.4  

    Unigene Cluster for OLFM4:

    Olfactomedin 4
    Hs.508113  [show with all ESTs]
    Unigene Representative Sequence: NM_006418
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000489054 ENST00000219022(uc001vhk.2 uc001vhl.3)

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    hsa-let-7d hsa-let-7c hsa-miR-486-5p hsa-let-7g hsa-let-7a hsa-miR-558 hsa-miR-186 hsa-miR-98
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    Additional cDNA sequence: 

    AK000683.1 AK300947.1 AY358567.1 BC047740.1 BC117329.1 

    8 DOTS entries:

    DT.446263  DT.100785237  DT.91810361  DT.100785238  DT.120771779  DT.95293320  DT.86848031  DT.97787537 

    24/199 AceView cDNA sequences (see all 199):

    T34936 NM_006418 AI601121 AI811969 AW513818 AI564392 AI635039 AI859018 
    BF222239 AW572449 AI559141 AI799381 AI560739 AI923293 AI799729 AW605231 
    AI565909 BF447309 AI827323 AI699868 BX482217 AI625261 AA417910 AI457140 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for OLFM4    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b ^ 6a · 6b · 6c
    SP1:              -           -                                             
    SP2:              -           -           -     -     -     -               
    SP3:                          -                                             
    SP4:                                                                        


    ECgene alternative splicing isoforms for OLFM4

    (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

    OLFM4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TAATTTTTGC

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

    About this image
    See OLFM4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for OLFM4

    SOURCE GeneReport for Unigene cluster: Hs.508113

    UniProtKB/Swiss-Prot: OLFM4_HUMAN, Q6UX06
    Tissue specificity: Expressed during myeloid lineage development. Much higher expression in bone marrow neutrophils
    than in peripheral blood neutrophils (at protein level). Strongly expressed in the prostate, small intestine and colon
    and moderately expressed in the bone marrow and stomach. Overexpressed in some pancreatic cancer tissues

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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for OLFM4

    (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 OLFM4 gene from 6/17 species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves OLFM41 olfactomedin 4 65.59(n)
    59.54(a)
      418826  NM_001040463.1  NP_001035553.1 
    lizard
    (Anolis carolinensis)
    Reptilia OLFM46
    --
    --
    59(a)
    39(a)
    1 ↔ 1
    possible ortholog
    3(71192440-71223609)
    1(88350295-88355088)
    African clawed frog
    (Xenopus laevis)
    Amphibia Tiarin2 Tiarin protein 74.23(n)    AB075925.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC5694271 olfactomedin-4-like 50.08(n)
    41.22(a)
      569427  XM_692811.4  XP_697903.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG68676
    --
    8(a)
    1 → many
    X(17917903-17922294)
    worm
    (Caenorhabditis elegans)
    Secernentea cof-26
    unc-1226
    UNCoordinated family member (unc-122)
    13(a)
    12(a)
    many ↔ many
    many ↔ many
    I(6250573-6252823)
    I(14872151-14875367)


    ENSEMBL Gene Tree for OLFM4 (if available)
    TreeFam Gene Tree for OLFM4 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for OLFM4 gene
    GLDN2  OLFM32  OLFML2B2  MYOC2  OLFML32  OLFML2A2  OLFM22  OLFM12  
    OLFML12  

    OLFM4 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for OLFM4
    PGOHUM00000250356 PGOHUM00000250151


    (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

    10/475 NCBI SNPs in OLFM4 are shown (see all 475    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs79966331,2
    C,--53601164(+) CTTGGA/GCTGGG 1 -- us2k12Minor allele frequency- G:0.05WA 120
    rs1513098011,2
    --53601170(+) CTGGGG/TATCTA 1 -- us2k10--------
    rs800906131,2
    --53601180(+) AAGTGA/GTTAGA 1 -- us2k10--------
    rs1812636681,2
    --53601280(+) ACTCTA/CTATCC 1 -- us2k10--------
    rs1853273241,2
    --53601393(+) GCTTAC/TTCTGA 1 -- us2k10--------
    rs1913546531,2
    --53601545(+) CAAAAA/GTCATA 1 -- us2k10--------
    rs1179005021,2
    --53601585(+) TTCAAA/GCAATT 1 -- us2k11Minor allele frequency- G:0.01NA 120
    rs21859591,2
    C,F,A,H,--53601630(+) CATGCC/TCAAGG 1 -- us2k113Minor allele frequency- T:0.28NA WA CSA EA 378
    rs65617031,2
    C,F,A,--53601742(+) actacA/Tgccgc 1 -- us2k13Minor allele frequency- T:0.23WA CSA 122
    rs1139918911,2
    C--53601899(+) CTCAAG/TCCATC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for OLFM4 (53602830 - 53626196 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for OLFM4: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing OLFM4
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    (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

    OLFM4 for disorders           About GeneDecksing

    OMIM gene information: 614061    OMIM disorders: --

    14 diseases for OLFM4:    About MalaCards
    herpes simplex    myeloid leukemia    colon carcinoma    colon cancer
    gastric cancer    pancreatic cancer    colorectal cancer    lung cancer
    prostate cancer    pancreatitis    leukemia    prostatitis
    thyroiditis    carcinoma


    Export disorders for OLFM4 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 OLFM4 gene, integrated from 9 sources (see all 35):
    (articles sorted by number of sources associating them with OLFM4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Olfactomedin 4 is a novel target gene of retinoic aci ds and 5-aza-2'-deoxycytidine involved in human myeloid leukemia cell growth, d ifferentiation, and apoptosis. (PubMed id 20724538)1, 2 Liu W....Rodgers G.P. (2010)
    2. The glycoprotein hGC-1 binds to cadherin and lectins. (PubMed id 16566923)1, 2 Liu W.... Rodgers G.P. (2006)
    3. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (2003)
    4. Identification and characterization of a novel member of olfactomedin-related protein family, hGC-1, expressed during myeloid lineage development. (PubMed id 11867215)1, 2 Zhang J.... Rodgers G.P. (2002)
    5. Serum olfactomedin 4 (GW112, hGC-1) in combination wi th Reg IV is a highly sensitive biomarker for gastric cancer patients. (PubMed id 19670418)1, 9 Oue N....Yasui W. (2009)
    6. Olfactomedin 4 promotes S-phase transition in proliferation of pancreatic cancer cells. (PubMed id 17270022)2, 9 Kobayashi D.... Watanabe N. (2007)
    7. Olfactomedin 4 defines a subset of human neutrophils. (PubMed id 22187488)1 Clemmensen S.N....Borregaard N. (2012)
    8. A genome-wide association meta-analysis identifies new childhood obesity loci. (PubMed id 22484627)1 Bradfield J.P....Grant S.F. (2012)
    9. Depletion of OLFM4 gene inhibits cell growth and incre ases sensitization to hydrogen peroxide and tumor necrosis factor-alpha induced- apoptosis in gastric cancer cells. (PubMed id 22471589)1 Liu R.H....Huang Y. (2012)
    10. A genome-wide association study of host genetic determ inants of the antibody response to Anthrax Vaccine Adsorbed. (PubMed id 22658931)1 Pajewski N.M....Kaslow R.A. (2012)

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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: 10562 HGNC: 17190 AceView: OLFM4 Ensembl:ENSG00000102837 euGenes: HUgn10562
    ECgene: OLFM4 H-InvDB: OLFM4

    (According to HUGE)
    About This Section
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    (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 OLFM4 Pharmacogenomics, SNPs, Pathways

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