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ODF4 Gene

protein-coding   GIFtS: 42
GCID: GC17P008243

Outer Dense Fiber Of Sperm Tails 4

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Outer Dense Fiber Of Sperm Tails 41 2     CT1342
OPPO12 3 5     CT1362
Cancer/Testis Antigen 1361 2     Cancer/Testis Antigen 1342
Outer Dense Fiber Of Sperm Tails Protein 42 3     Outer Dense Fiber 42
Testis-Specific Protein Oppo 12 3     Outer Dense Fiber Protein 42
hOPPO12 3     

External Ids:    HGNC: 190561   Entrez Gene: 1468522   Ensembl: ENSG000001846507   OMIM: 6100975   UniProtKB: Q2M2E33   

Export aliases for ODF4 gene to outside databases

Previous GC identifers: GC17P008978 GC17P008186 GC17P008443 GC17P008183


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for ODF4 Gene:
This gene encodes a protein that is localized in the outer dense fibers of the tails of mature sperm. This protein
is thought to have some important role in the sperm tail. (provided by RefSeq, Jul 2008)

GeneCards Summary for ODF4 Gene:
ODF4 (outer dense fiber of sperm tails 4) is a protein-coding gene. Diseases associated with ODF4 include chronic myeloid leukemia, and myeloid leukemia.

UniProtKB/Swiss-Prot: ODFP4_HUMAN, Q2M2E3
Function: Component of the outer dense fibers (ODF) of spermatozoa which could be involved in sperm tail
structure, sperm movement and general organization of cellular cytoskeleton (By similarity)




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000017.11  NT_010718.17  NC_018928.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the ODF4 gene promoter:
         AhR   AP-1   HTF   AP-4   Tal-1beta   E47   Evi-1   AREB6   c-Myb   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidODF4 promoter sequence
   Search Chromatin IP Primers for ODF4

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat ODF4


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

Entrez Gene cytogenetic band: 17p13.1   Ensembl cytogenetic band:  17p13.1   HGNC cytogenetic band: 17p13

ODF4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
ODF4 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P008243:  view genomic region     (about GC identifiers)

Start:
8,243,182 bp from pter      End:
8,249,364 bp from pter
Size:
6,183 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: ODFP4_HUMAN, Q2M2E3 (See protein sequence)
Recommended Name: Outer dense fiber protein 4  
Size: 257 amino acids; 29233 Da
Secondary accessions: Q8J021

Explore the universe of human proteins at neXtProt for ODF4: NX_Q2M2E3

Explore proteomics data for ODF4 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See ODF4 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_694552.2  
    ENSEMBL proteins: 
     ENSP00000331086   ENSP00000461942  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    ProtoNet protein and cluster: Q2M2E3


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: ODFP4_HUMAN, Q2M2E3
    Function: Component of the outer dense fibers (ODF) of spermatozoa which could be involved in sperm tail
    structure, sperm movement and general organization of cellular cytoskeleton (By similarity)

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    ODFP4_HUMAN, Q2M2E3: Membrane; Multi-pass membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane3
    peroxisome2

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001520outer dense fiber IEA--
    GO:0016021integral component of membrane IEA--
    GO:0031514motile cilium IEA--

    ODF4 for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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    Interactions:

        Search GeneGlobe Interaction Network for ODF4

    Gene Ontology (GO): 3 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007275multicellular organismal development IEA--
    GO:0007283spermatogenesis IEA--
    GO:0030154cell differentiation IEA--

    ODF4 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for ODF4 (ODFP4)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for ODF4 gene: 
    NM_153007.4  

    Unigene Cluster for ODF4:

    Outer dense fiber of sperm tails 4
    Hs.186045  [show with all ESTs]
    Unigene Representative Sequence: AY237799
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000328248(uc002gle.1) ENST00000584943
    miRNA
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    hsa-miR-3150b-3p hsa-miR-3692
    SwitchGear 3'UTR luciferase reporter plasmidODF4 3' UTR sequence
    Inhib. RNA
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    Additional mRNA sequence: 

    AB081120.1 AY237799.1 BC112010.1 BC112014.1 FJ235526.1 

    1 DOTS entry:

    DT.100016303 

    8 AceView cDNA sequences:

    AA583225 BX094858 AI862103 AB081120 AY237799 NM_153007 AI968783 AI125365 

    GeneLoc Exon Structure

    2 Alternative Splicing Database (ASD) splice patterns (SP) for ODF4    About this scheme

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b
    SP1:        -                     
    SP2:                              


    ECgene alternative splicing isoforms for ODF4

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    ODF4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGTAATCTTT
    ODF4 Expression
    About this image


    ODF4 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Testis (Reproductive System)
             Mature Sertoli Cells Seminiferous Tubules
    ODF4 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    ODF4 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.186045

    UniProtKB/Swiss-Prot: ODFP4_HUMAN, Q2M2E3
    Tissue specificity: Expressed in testis and sperm; especially localized to sperm tail (at protein level)

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    In Situ
    Assay Products:
     

     
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    (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)
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    This gene was present in the common ancestor of human and mouse.

    Orthologs for ODF4 gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Odf41 , 5 outer dense fiber of sperm tails 41, 5 66.5(n)1
    54.59(a)1
      11 (42.19 cM)5
    2528681  NM_145746.21  NP_665689.11 
     689218355 


    ENSEMBL Gene Tree for ODF4 (if available)
    TreeFam Gene Tree for ODF4 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for ODF4 (see all 256)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs65031021,2
    C,F,A,H--8241190(+) AGTCAA/GAAGAA 1 -- us2k1 trp323Minor allele frequency- N:0.00NS EA NA WA CSA 2558
    rs620642921,2
    C,F--8241204(+) GGAAGG/AAACTG 1 -- us2k11Minor allele frequency- A:0.04NA 120
    rs1810959601,2
    --8241370(+) ATCAGC/TGAGCA 1 -- us2k10--------
    rs1854089731,2
    --8241380(+) ATTTGC/GGGTTG 1 -- us2k10--------
    rs1495008581,2
    --8241548(+) GAGGAC/TGTCAG 1 -- us2k10--------
    rs1909073111,2
    --8241549(+) AGGACA/GTCAGG 1 -- us2k10--------
    rs1825018781,2
    C--8241572(+) ATGGTA/GGAGGC 1 -- us2k10--------
    rs80696201,2
    C,F,H--8241651(+) aataaA/Gccagt 1 -- us2k115Minor allele frequency- G:0.09NS EA NA WA 1880
    rs80691581,2
    C,F,H--8241673(+) attttC/Tgagtt 1 -- us2k120Minor allele frequency- T:0.35NS EA NA WA CSA 2346
    rs80679991,2
    C,F--8241702(+) aaacaG/Acttgc 1 -- us2k17Minor allele frequency- A:0.35WA NA CSA EA 366

    HapMap Linkage Disequilibrium report for ODF4 (8243182 - 8249364 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 8 variations for ODF4:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv1978259CNV Deletion18987734
    esv2555685CNV Deletion19546169
    esv989739CNV Deletion20482838
    esv2715613CNV Deletion23290073
    nsv1967CNV Loss18451855
    nsv512476CNV Loss21212237
    nsv907661CNV Gain21882294
    nsv457664CNV Gain19166990

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 610097    OMIM disorders: --

    5 diseases for ODF4:    
    About MalaCards
    chronic myeloid leukemia    myeloid leukemia    prostate cancer    prostatitis
    leukemia


    ODF4 for disorders           About GeneDecksing


    Export disorders for ODF4 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)
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    PubMed articles for ODF4 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with ODF4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Molecular cloning and characterization of the human orthologue of the oppo 1 gene encoding a sperm tail protein. (PubMed id 12728016)1, 2, 9 Kitamura K....Nishimune Y. (Mol. Hum. Reprod. 2003)
    2. Expression of splice variants of cancer-testis genes ODF3 and ODF4 in the testis of a prostate cancer patient. (PubMed id 23096689)1 Ghafouri-Fard S. and Modarressi M.H. (Genet. Mol. Res. 2012)
    3. Expression of testis-specific genes, TEX101 and ODF4, in chronic myeloid leukemia and evaluation of TEX101 immunogenicity. (PubMed id 22588436)1 Ghafouri-Fard S....Yazarloo F. (Ann Saudi Med 2012)
    4. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (J. Biol. Chem. 2011)
    5. Isolation and expression analysis of the testis-specific gene, human OPPO1. (PubMed id 15270212)1 Miyamoto T....Ishikawa M. (J. Assist. Reprod. Genet. 2004)
    6. 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. (Genome Res. 2004)
    7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 146852 HGNC: 19056 AceView: ODF4 Ensembl:ENSG00000184650 euGenes: HUgn146852
    ECgene: ODF4 H-InvDB: ODF4

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for ODF4 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for ODF4 gene:
    Search GeneIP for patents involving ODF4

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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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