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EMR4P Gene

pseudogene   GIFtS: 28
GCID: GC19M006952

Egf-Like Module Containing, Mucin-Like, Hormone Receptor-Like...

(Previous names: G protein-coupled receptor 127, egf-like module containing,...)
(Previous symbols: GPR127, EMR4)
  Search for EMR4P
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
Egf-Like Module Containing, Mucin-Like, Hormone Receptor-Like 4
Pseudogene1 2
     Egf-Like Module Containing, Mucin-Like, Hormone Receptor-Like 41
EMR41 2 3 5     G Protein-Coupled Receptor 1271
GPR1271 2 3 5     EGF-Like Module Receptor 43
PGR162 3     G-Protein Coupled Receptor 1273
FIRE2 5     G-Protein Coupled Receptor PGR163

External Ids:    HGNC: 192401   Entrez Gene: 3263422   Ensembl: ENSG000002687587   OMIM: 6123055   UniProtKB: Q86SQ33   

Export aliases for EMR4P gene to outside databases

Previous GC identifers: GC19M006910 GC19M006715


(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 EMR4P Gene:
This gene is a member of the EGF-TM7 receptor gene family which is thought to play a role in leukocyte adhesion
and migration. In other vertebrates, including nonhuman primates, this gene encodes a protein containing
N-terminal EGF domains and a C-terminal transmembrane domain. Sequence evidence for the human gene, however,
indicates nucleotide deletion in the genomic sequence would result in frameshift and early termination of
translation. A protein expressed by this gene would be soluble rather than expressed on the cell surface. As the
encoded protein has not been detected, this gene may represent a transcribed pseudogene. (provided by RefSeq, Aug
2008)

GeneCards Summary for EMR4P Gene:
EMR4P (egf-like module containing, mucin-like, hormone receptor-like 4 pseudogene) is a pseudogene.

UniProtKB/Swiss-Prot: EMR4_HUMAN, Q86SQ3
Function: Could mediated the cellular interaction between myeloid cells and B-cells (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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Regulatory elements:
   Regulatory transcription factor binding sites in the EMR4P gene promoter:
         Elk-1   Pax-2   Pax-2a   Evi-1   GATA-1   Gfi-1   YY1   AREB6   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for EMR4P

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat EMR4P


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

Entrez Gene cytogenetic band: 19p13.3   Ensembl cytogenetic band:  19p13.2   HGNC cytogenetic band: 19p13.2

EMR4P Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
EMR4P gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M006952:  view genomic region     (about GC identifiers)

Start:
6,952,511 bp from pter      End:
6,990,857 bp from pter
Size:
38,347 bases      Orientation:
minus 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, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: EMR4_HUMAN, Q86SQ3 (See protein sequence)
Recommended Name: Putative EGF-like module-containing mucin-like hormone receptor-like 4 precursor  
Size: 457 amino acids; 50903 Da
Subunit: Forms a heterodimer, consisting of a large extracellular region (alpha subunit) non-covalently linked to
a seven-transmembrane moiety (beta subunit) (By similarity)
Caution: Could be the product of a pseudogene. Seems to have became non-functional after human-chimpanzee
speciation, about five million years ago
Secondary accessions: Q86SP1
Alternative splicing: 2 isoforms:  Q86SQ3-1   Q86SQ3-2   (No experimental confirmation available. Due to a frameshift mutation in exon 8 would result in a truncated soluble form)

Explore the universe of human proteins at neXtProt for EMR4P: NX_Q86SQ3

Explore proteomics data for EMR4P at MOPED

Post-translational modifications: 

  • Proteolytically cleaved into 2 subunits, an extracellular alpha subunit and a seven-transmembrane subunit (By
    similarity)1
  • Glycosylation2 at Asn26, Asn106, Asn162, Asn245

  • See EMR4P Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


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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:
    GPCRBO: GPCR / Class B : Orphans

    IUPHAR Guide to PHARMACOLOGY protein family classification: EMR4P
    Adhesion Class GPCRs

    Selected InterPro protein domains (see all 9):
     IPR017983 GPCR_2_secretin-like_CS
     IPR001881 EGF-like_Ca-bd_dom
     IPR000742 EG-like_dom
     IPR017981 GPCR_2-like
     IPR000152 EGF-type_Asp/Asn_hydroxyl_site

    Graphical View of Domain Structure for InterPro Entry Q86SQ3

    ProtoNet protein and cluster: Q86SQ3

    5 Blocks protein domains:
    IPB000152 Aspartic acid and asparagine hydroxylation site
    IPB000203 GPS domain
    IPB000832 G-protein coupled receptors family 2 (secretin-like)
    IPB001881 EGF-like calcium-binding
    IPB006210 Type I EGF


    UniProtKB/Swiss-Prot: EMR4_HUMAN, Q86SQ3
    Similarity: Belongs to the G-protein coupled receptor 2 family. LN-TM7 subfamily
    Similarity: Contains 2 EGF-like domains
    Similarity: Contains 1 GPS domain


    EMR4P for domains           About GeneDecksing


    (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: EMR4_HUMAN, Q86SQ3
    Function: Could mediated the cellular interaction between myeloid cells and B-cells (By similarity)

    Animal Models:

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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
    EMR4_HUMAN, Q86SQ3: Cell membrane; Multi-pass membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    plasma membrane5

    (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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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for EMR4P
    Interactions:

        Search GeneGlobe Interaction Network for EMR4P

    (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 EMR4P (EMR4)



    (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, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for EMR4P gene: 
    NM_001080498.2  

    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000600751 ENST00000597372
    miRNA
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    3 AceView cDNA sequences:

    AY255550 AF489700 AY181245 

    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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    EMR4P expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CACACGTATG
    EMR4P Expression
    About this image


    EMR4P expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Adipose (Muscoskeletal System)
             Mesenchymal Stem Cells Subcutaneous White Adipose
     
     Mesenchymal Stem Cells
             Mesenchymal Stem Cells Subcutaneous White Adipose
    EMR4P Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    EMR4P Protein Expression
        Custom PCR Arrays for EMR4P
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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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      --

    ENSEMBL Gene Tree for EMR4P (if available)
    TreeFam Gene Tree for EMR4P (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for EMR4P gene
    9 SIMAP similar genes for EMR4P using alignment to 1 protein entry:     EMR4_HUMAN:
    FLJ00015    EMR2    FLJ00046    EMR3    EMR1    LPHN3
    LPHN2    ELTD1    GPR133

    EMR4P for paralogs           About GeneDecksing



    (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 EMR4P (see all 1134)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1874563011,2
    --6876700(+) GGATGA/TTAATG 1 -- ds50010--------
    rs1381331491,2
    --6877247(+) GTATAC/TACCCA 1 -- nc-transcript-variant0--------
    rs1491477171,2
    --6877276(+) CAAATA/GGTATT 1 -- nc-transcript-variant0--------
    rs1848617651,2
    --6877307(+) GAATCA/GCCACA 1 -- nc-transcript-variant0--------
    rs1432853381,2
    C--6877615(+) TCTCCC/TGCCCG 1 -- nc-transcript-variant0--------
    rs1391900511,2
    --6877643(+) CCTTCC/TGACAC 1 -- nc-transcript-variant0--------
    rs764910871,2
    C,F--6877644(+) CTTCCG/TACACT 1 -- nc-transcript-variant1Minor allele frequency- T:0.12WA 118
    rs749728221,2
    C,F--6877652(+) ACTTCA/GTTGCA 1 -- nc-transcript-variant1Minor allele frequency- G:0.03EA 120
    rs561536141,2
    C--6877659(+) TGCACG/TTGCCA 1 -- nc-transcript-variant2Minor allele frequency- T:0.20WA 120
    rs1431668891,2
    C--6877730(+) AAAGCC/TAAAAT 1 -- nc-transcript-variant0--------

    HapMap Linkage Disequilibrium report for EMR4P (6952511 - 6990857 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for EMR4P (see all 21):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2662906CNV Deletion23128226
    esv2718080CNV Deletion23290073
    esv2425378CNV Deletion19546169
    esv2668680CNV Deletion23128226
    dgv14e196CNV Duplication17116639
    esv2751810CNV Loss17911159
    nsv910954CNV Loss21882294
    nsv833729CNV Loss17160897
    dgv394n27CNV Loss19166990
    esv27190CNV Loss19812545

    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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    OMIM gene information: 612305    OMIM disorders: --


    EMR4P for disorders           About GeneDecksing


    Export disorders for EMR4P 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 EMR4P gene integrated from 10 sources:
    (articles sorted by number of sources associating them with EMR4P)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. There exist at least 30 human G-protein-coupled receptors with long Ser/Thr-rich N-termini. (PubMed id 12565841)1, 2, 3, 9 Fredriksson R....Schioeth H.B. (Biochem. Biophys. Res. Commun. 2003)
    2. Inactivation of the EGF-TM7 receptor EMR4 after the Pan-Homo divergence. (PubMed id 12731063)1, 2, 9 Hamann J....van Lier R.A.W. (Eur. J. Immunol. 2003)
    3. The G protein-coupled receptor repertoires of human and mouse. (PubMed id 12679517)1, 2 Vassilatis D.K.... Gaitanaris G.A. (Proc. Natl. Acad. Sci. U.S.A. 2003)
    4. Gene structure and transcript analysis of the human and mouse EGF-TM7 molecule, FIRE. (PubMed id 16753812)1 Caminschi I....Wright M.D. (DNA Seq. 2006)
    5. The human and mouse repertoire of the adhesion family of G-protein- coupled receptors. (PubMed id 15203201)1 Bjarnadottir T.K.... Schioeth H.B. (Genomics 2004)
    6. 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)
    7. The sequence of the human genome. (PubMed id 11181995)1 Venter J.C.... Zhu X. (Science 2001)

    (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: 326342 HGNC: 19240 AceView: EMR4 Ensembl:ENSG00000268758 euGenes: HUgn326342
    ECgene: EMR4P H-InvDB: EMR4P

    (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 EMR4P 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 EMR4P gene:
    Search GeneIP for patents involving EMR4P

    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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