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OR3A4P Gene

pseudogene   GIFtS: 33
GCID: GC17P003233

Olfactory Receptor, Family 3, Subfamily A, Member 4 Pseudogene

(Previous names: olfactory receptor, family 3, subfamily A, member 4)
(Previous symbol: OR3A4)
  Search for OR3A4P
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
Olfactory Receptor, Family 3, Subfamily A, Member 4 Pseudogene1 2     OR17-132
OR3A41 2 3     OR17-162
OR17-242 3     OR17-252
OR3A5P2 3     OR242
Olfactory Receptor, Family 3, Subfamily A, Member 41     OR252
OLFRA052     Olfactory Receptor 17-243
OLFRA062     Olfactory Receptor 3A53

External Ids:    HGNC: 155101   Entrez Gene: 3907562   Ensembl: ENSG000001800687   UniProtKB: P478833   

Export aliases for OR3A4P gene to outside databases

Previous GC identifers: GC17P003214 GC17P003216 GC17P003222 GC17P003228


(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 OR3A4P Gene:
Olfactory receptors interact with odorant molecules in the nose, to initiate a neuronal response that triggers the
perception of a smell. The olfactory receptor proteins are members of a large family of G-protein-coupled
receptors (GPCR) arising from single coding-exon genes. Olfactory receptors share a 7-transmembrane domain
structure with many neurotransmitter and hormone receptors and are responsible for the recognition and G
protein-mediated transduction of odorant signals. The olfactory receptor gene family is the largest in the
genome. The nomenclature assigned to the olfactory receptor genes and proteins for this organism is independent
of other organisms. This olfactory receptor gene is transcribed and contains an intact ORF, but it is predicted
to be a pseudogene due to a poorly conserved 7-transmembrane domain structure. (provided by RefSeq, Sep 2008)

GeneCards Summary for OR3A4P Gene:
OR3A4P (olfactory receptor, family 3, subfamily A, member 4 pseudogene) is a pseudogene.

UniProtKB/Swiss-Prot: OR3A4_HUMAN, P47883
Function: Odorant receptor (Potential)

Gene Wiki entry for OR3A4P (OR3A4) 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000017.10  NC_018928.2  NT_010718.17  
Regulatory elements:
   Search for regulatory transcription factor binding sites for OR3A4P
         Other transcription factors

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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat OR3A4P


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

Entrez Gene cytogenetic band: 17p13.3   Ensembl cytogenetic band:  17p13.3   HGNC cytogenetic band: 17p13.3

OR3A4P Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
OR3A4P gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P003233:  view genomic region     (about GC identifiers)

Start:
3,213,539 bp from pter      End:
3,214,740 bp from pter
Size:
1,202 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, Cloud-Clone Corp., and/or eBioscience,
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UniProtKB/Swiss-Prot: OR3A4_HUMAN, P47883 (See protein sequence)
Recommended Name: Putative olfactory receptor 3A4  
Size: 348 amino acids; 37194 Da
Caution: Could be the product of a pseudogene
Secondary accessions: Q96R24

Explore the universe of human proteins at neXtProt for OR3A4P: NX_P47883

Post-translational modifications: 

  • Glycosylation2 at Asn8
  • Reactome Protein details: P47883

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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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    HGNC Gene Families:
    OR3: GPCR / Class A : Olfactory receptors

    3 InterPro protein domains:
     IPR017452 GPCR_Rhodpsn_7TM
     IPR000725 Olfact_rcpt
     IPR000276 GPCR_Rhodpsn

    Graphical View of Domain Structure for InterPro Entry P47883

    ProtoNet protein and cluster: P47883

    UniProtKB/Swiss-Prot: OR3A4_HUMAN, P47883
    Similarity: Belongs to the G-protein coupled receptor 1 family


    Find genes that share domains with OR3A4P           About GenesLikeMe


    (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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: OR3A4_HUMAN, P47883
    Function: Odorant receptor (Potential)

         Genatlas biochemistry entry for OR3A4P:
    olfactory receptor gene family 3,subfamily A,member 4,pseudogene,G protein coupled receptor superfamily

    Phenotypes:
         1 GenomeRNAi human phenotype for OR3A4P:
     Increased HPV18 LCR reporter a 

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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
    OR3A4_HUMAN, P47883: Cell membrane; Multi-pass membrane protein

    (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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    SuperPaths for OR3A4P About    
    See pathways by source

    SuperPathContained pathways About
    1Signaling by GPCR
    Signaling by GPCR0.90
    Signal Transduction0.58
    GPCR downstream signaling0.90
    2Olfactory Signaling Pathway
    Olfactory Signaling Pathway0.82
    3Peptide ligand-binding receptors
    GPCRs, Class A Rhodopsin-like0.43
    4GPCRs, Other
    GPCRs, Other


    Find genes that share SuperPaths with OR3A4P           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    2 BioSystems Pathways for OR3A4P
        GPCRs, Other
    GPCRs, Class A Rhodopsin-like

    1 Reactome Pathway for OR3A4P
        Olfactory Signaling Pathway


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    Interactions:

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    (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 Tocris compounds for OR3A4P (OR3A4)



    (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,
    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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for OR3A4P gene: 
    NM_001005334.1  

    Unigene Cluster for OR3A4P:

    Olfactory receptor, family 3, subfamily A, member 4 pseudogene
    Hs.632245
    Unigene Representative Sequence: BC136875
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000323164 ENST00000545655(uc002fvi.2)
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    Additional mRNA sequence: 

    AJ459867.1 BC136874.1 BC136875.1 NR_024128.1 

    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™, 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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    See probesets specificity/sensitivity at GeneAnnot
    CGAP TAG: AGCTGTGAAG

    OR3A4P Protein expression data from MOPED1, PaxDb2 and MaxQB3 --

    SOURCE GeneReport for Unigene cluster: Hs.632245
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    In Situ
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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 OR3A4P gene from 1 species (see representative species )    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Olfr3995 olfactory receptor 399   --   11 (45.73 cM) 74050436 


    ENSEMBL Gene Tree for OR3A4P (if available)
    TreeFam Gene Tree for OR3A4P (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for OR3A4P gene
    Selected SIMAP similar genes for OR3A4P using alignment to 1 protein entry:     OR3A4_HUMAN(see all similar genes):
    OR17-16    OR17-137    OR3A1    OR3A2    OR3A3    OR17-15
    OR13G1    OR1C1    OR1F2P    OR1J2    OR4Q3    OR2W3
    OR6N1    HSA10    LOC441453    OR10G4    OR10G7    OR10R3P

    Find genes that share paralogs with OR3A4P           About GenesLikeMe



    (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 OR3A4P (see all 161)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1511726471,2
    --3211560(+) AGTGTC/GAAAAT 1 -- us2k10--------
    rs764025081,2
    C--3211637(+) TGCTGG/AGCCGG 1 -- us2k14Minor allele frequency- A:0.26WA CSA NA 241
    rs1411838461,2
    --3211641(+) GGGCCA/GGCGGG 1 -- us2k10--------
    rs1890208761,2
    --3211681(+) TTGGCC/TGGGTG 1 -- us2k10--------
    rs1468471851,2
    --3211695(+) CTCATA/CTCAAG 1 -- us2k10--------
    rs1392242181,2
    --3211702(+) CAAGAA/CTCCTC 1 -- us2k10--------
    rs28556781,2
    C,F,H--3211794(-) CCCACT/CGGATC 1 -- us2k16Minor allele frequency- C:0.02NS EA WA 532
    rs2316801,2
    C,F,A--3211814(+) CTTCAG/ATGTGC 1 -- us2k115Minor allele frequency- A:0.46EA NA WA 658
    rs1814576301,2
    --3211874(+) CTCACA/GGGGAG 1 -- us2k10--------
    rs72145651,2
    C,F,A,H--3211910(+) TTAGTC/TCAAAG 1 -- us2k118Minor allele frequency- T:0.21NS EA NA WA 908

    HapMap Linkage Disequilibrium report for OR3A4P (3213539 - 3214740 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for OR3A4P: --
    Site Specific Mutation Identification with PCR Assays
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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.)
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      --

    (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 OR3A4P gene integrated from 10 sources:
    (articles sorted by number of sources associating them with OR3A4P)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. DEFOG: a practical scheme for deciphering families of genes. (PubMed id 12213199)1, 2 Fuchs T.... Shamir R. (Genomics 2002)
    2. Olfactory receptor gene cluster on human chromosome 17: possible duplication of an ancestral receptor repertoire. (PubMed id 8004088)1, 2 Ben-Arie N.... North M.A. (Hum. Mol. Genet. 1994)
    3. Sequence analysis in the olfactory receptor gene cluster on human chromosome 17: recombinatorial events affecting receptor diversity. (PubMed id 8921386)1, 9 Glusman G.... Lancet D. (Genomics 1996)
    4. A probabilistic classifier for olfactory receptor pseudogenes. (PubMed id 16939646)1 Menashe I....Lancet D. (BMC Bioinformatics 2006)
    5. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)2 Zody M.C.... Nusbaum C. (Nature 2006)
    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. The human olfactory receptor gene family. (PubMed id 14983052)1 Malnic B.... Buck L.B. (Proc. Natl. Acad. Sci. U.S.A. 2004)
    8. 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)
    9. Sequence, structure, and evolution of a complete human olfactory receptor gene cluster. (PubMed id 10673334)1 Glusman G.... Lancet D. (Genomics 2000)

    (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: 390756 HGNC: 15510 Ensembl:ENSG00000180068 euGenes: HUgn390756 ECgene: OR3A4P
    H-InvDB: OR3A4P

    (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 OR3A4P 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 OR3A4P gene:
    Search GeneIP for patents involving OR3A4P

    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, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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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