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

SPRYD4 Gene

protein-coding   GIFtS: 52
GCID: GC12P056863

SPRY Domain Containing 4

  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
SPRY Domain Containing 41 2
SPRY Domain-Containing Protein 42

External Ids:    HGNC: 274681   Entrez Gene: 2833772   Ensembl: ENSG000001764227   UniProtKB: Q8WW593   

Export aliases for SPRYD4 gene to outside databases

Previous GC identifers: GC12P055149 GC12P053905


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for SPRYD4 Gene: 
SPRYD4 (SPRY domain containing 4) is a protein-coding gene. Diseases associated with SPRYD4 include atherosclerosis. GO annotations related to this gene include molecular_function. An important paralog of this gene is FSD2.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000012.11  NC_018923.2  NT_029419.12  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SPRYD4 gene promoter:
         Sp1   AP-2alpha isoform 3   ATF-2   AP-2alpha isoform 2   Max   AP-2alpha isoform 4   AP-2alpha   AP-2alphaA   c-Myc   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SPRYD4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SPRYD4


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

Entrez Gene cytogenetic band: 12q13.3   Ensembl cytogenetic band:  12q13.3   HGNC cytogenetic band: 12q13.3

SPRYD4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SPRYD4 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P056863:  view genomic region     (about GC identifiers)

Start:
56,862,301 bp from pter      End:
56,864,769 bp from pter
Size:
2,469 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SPRY4_HUMAN, Q8WW59 (See protein sequence)
Recommended Name: SPRY domain-containing protein 4  
Size: 207 amino acids; 23129 Da
Secondary accessions: A8K7A5

Explore the universe of human proteins at neXtProt for SPRYD4: NX_Q8WW59

Explore proteomics data for SPRYD4 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q8WW59

  • SPRYD4 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SPRYD4 Protein Expression
    REFSEQ proteins: NP_997227.1  
    ENSEMBL proteins: 
     ENSP00000338034  

    Human Recombinant Protein Products for SPRYD4: 
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    Cloud-Clone Corp. Proteins for SPRYD4 

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA17852359
    GO:0005739mitochondrion IEA--

    SPRYD4 for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    4 InterPro protein domains:
     IPR001870 B30.2/SPRY
     IPR003877 SPRY_rcpt
     IPR003879 Butyrophylin
     IPR008985 ConA-like_lec_gl_sf

    Graphical View of Domain Structure for InterPro Entry Q8WW59

    ProtoNet protein and cluster: Q8WW59

    1 Blocks protein domain: IPB003879 Butyrophylin C-terminal DUF signature

    UniProtKB/Swiss-Prot: SPRY4_HUMAN, Q8WW59
    Similarity: Contains 1 B30.2/SPRY domain


    SPRYD4 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,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003674molecular_function ND--
    GO:0005515protein binding ----
         
    SPRYD4 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SPRYD4:
     Decreased influenza A/WSN/33 r 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for SPRYD4 
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    miRNA
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    miRTarBase miRNAs that target SPRYD4:
    hsa-let-7b (MIRT001588)

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    8/38 QIAGEN miScript miRNA Assays for microRNAs that regulate SPRYD4 (see all 38):
    hsa-miR-124* hsa-miR-582-3p hsa-miR-429 hsa-let-7d hsa-miR-25 hsa-let-7g hsa-miR-9 hsa-miR-133a
    SwitchGear 3'UTR luciferase reporter plasmidSPRYD4 3' UTR sequence
    Inhib. RNA
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    Clone
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPRYD4


    (Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SPRYD4

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    1 Interacting protein for SPRYD4 (Q8WW592, 3 ENSP000003380344) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GRB2P629932, 3, ENSP000003390074MINT-6169726 I2D: score=1 STRING: ENSP00000339007
    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:0008150biological_process ND--

    SPRYD4 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, 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 SPRYD4 (SPRY4)

    Search CenterWatch for drugs/clinical trials and news about SPRYD4 / SPRY4

    (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,
    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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SPRYD4 gene: 
    NM_207344.3  

    Unigene Cluster for SPRYD4:

    SPRY domain containing 4
    Hs.128676  [show with all ESTs]
    Unigene Representative Sequence: BX647957
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000338146(uc010sqo.1 uc001sli.4)
    miRNA
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    8/38 QIAGEN miScript miRNA Assays for microRNAs that regulate SPRYD4 (see all 38):
    hsa-miR-124* hsa-miR-582-3p hsa-miR-429 hsa-let-7d hsa-miR-25 hsa-let-7g hsa-miR-9 hsa-miR-133a
    SwitchGear 3'UTR luciferase reporter plasmidSPRYD4 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for SPRYD4
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SPRYD4
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    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SPRYD4
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SPRYD4
    Sirion Biotech Customized lentivirus for stable overexpression of SPRYD4 
                         Customized lentivirus expression plasmids for stable overexpression of SPRYD4 
    Primer
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    OriGene qPCR primer pairs and template standards for SPRYD4
    OriGene qSTAR qPCR primer pairs in human, mouse for SPRYD4
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SPRYD4
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SPRYD4
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SPRYD4

    Additional mRNA sequence: 

    AF289571.1 AF451989.1 AK074733.1 AK291920.1 AK300594.1 AL832247.1 BC020844.1 BX647957.1 

    4 DOTS entries:

    DT.455017  DT.100780941  DT.97822611  DT.100037901 

    24/131 AceView cDNA sequences (see all 131):

    BX338532 CR618271 CR601006 AA994425 CR597464 CB159285 BQ000494 AA662283 
    AI420519 CR624785 T95418 BI561650 BX351988 BC020844 AW166444 BE242614 
    BE745537 AI023413 AI183278 BX381621 CD640042 AA442801 AW361711 BE890964 

    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™, 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

    SPRYD4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TAACTTGTTC
    SPRYD4 Expression
    About this image


    See SPRYD4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SPRYD4

    SOURCE GeneReport for Unigene cluster: Hs.128676
        SABiosciences Custom PCR Arrays for SPRYD4
    Primer
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    OriGene qPCR primer pairs and template standards for SPRYD4
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SPRYD4
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPRYD4

    (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 chordates.

    Orthologs for SPRYD4 gene from 3/11 species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Spryd41 , 5 SPRY domain containing 41, 5 87.92(n)1
    85.02(a)1
      10 (76.44 cM)5
    667011  NM_025716.21  NP_079992.11 
     1282099085 
    lizard
    (Anolis carolinensis)
    Reptilia SPRYD46
    Uncharacterized protein
    56(a)
    1 ↔ 1
    2(93177749-93182423)
    zebrafish
    (Danio rerio)
    Actinopterygii CK397931.12   -- 70.19(n)    CK397931.1 


    ENSEMBL Gene Tree for SPRYD4 (if available)
    TreeFam Gene Tree for SPRYD4 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SPRYD4 gene
    FSD22  CMYA52  
    1 SIMAP similar gene for SPRYD4 using alignment to 1 protein entry:     SPRY4_HUMAN:
    FSD1L

    SPRYD4 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for SPRYD4
    PGOHUM00000249349


    (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) 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

    10/90 SNPs in SPRYD4 are shown (see all 90)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 12 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0513814
    ----see VAR_0513812 M T mis40--------
    rs1834883121,2
    --56860369(+) GGGAGA/GGGAGG 1 -- us2k10--------
    rs1174572081,2
    C,F--56860379(+) GAAGAA/GTTTTT 1 -- us2k11Minor allele frequency- G:0.01EA 120
    rs29332431,2
    C--56860577(-) ACAGAC/TGTGAG 1 -- us2k10--------
    rs1885387501,2
    --56860746(+) GACAAA/GAGAAT 1 -- us2k10--------
    rs1927607561,2
    --56860770(+) GAGGCA/GGAGGT 1 -- us2k10--------
    rs1386236951,2
    C--56860871(+) GGGCAC/TCTGTA 1 -- us2k10--------
    rs731148721,2
    C,F--56861034(+) TCCTTT/CTTTGA 1 -- us2k13Minor allele frequency- C:0.13WA NA EA 358
    rs1162066011,2
    C,F--56861282(+) TGGTCC/TCAGCT 1 -- us2k11Minor allele frequency- T:0.02WA 118
    rs73029251,2
    C,F,A,H--56861458(+) CCATAG/ATCTCC 1 -- us2k124Minor allele frequency- A:0.35NS EA NA WA 2490

    HapMap Linkage Disequilibrium report for SPRYD4 (56862301 - 56864769 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for SPRYD4:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2667114CNV Deletion23128226
    nsv482992CNV Complex15286789

    SABiosciences Cancer Mutation PCR Assays
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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.)
    About This Section
    2 diseases for SPRYD4:    About MalaCards
    atherosclerosis    


    SPRYD4 for disorders           About GeneDecksing

    Genetic Association Database (GAD): SPRYD4
    Human Genome Epidemiology (HuGE) Navigator: SPRYD4 (1 document)

    Export disorders for SPRYD4 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 SPRYD4 gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with SPRYD4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Genome-wide association study identifies multiple loci influencing human serum metabolite levels. (PubMed id 22286219)1, 4 Kettunen J....Ripatti S. (2012)
    2. Genetic variants in nuclear-encoded mitochondrial gen es influence AIDS progression. (PubMed id 20877624)1, 4 Hendrickson S.L....O'Brien S.J. (2010)
    3. 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)
    4. Novel Loci for metabolic networks and multi-tissue exp ression studies reveal genes for atherosclerosis. (PubMed id 22916037)1 Inouye M....de Bakker P.I. (2012)
    5. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    6. Lysine acetylation targets protein complexes and co-regulates major cellular functions. (PubMed id 19608861)2 Choudhary C.... Mann M. (2009)
    7. Cloning and characterization of a novel human SPRYD4 gene encoding a putative SPRY domain-containing protein. (PubMed id 17852359)1 Zhong Z....Yu L. (2008)
    8. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    9. The finished DNA sequence of human chromosome 12. (PubMed id 16541075)2 Scherer S.E.... Gibbs R.A. (2006)
    10. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 283377 HGNC: 27468 AceView: LOC283377 Ensembl:ENSG00000176422 euGenes: HUgn283377
    ECgene: SPRYD4 H-InvDB: SPRYD4

    (According to HUGE)
    About This Section
      --

    (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 SPRYD4 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SPRYD4 gene:
    Search GeneIP for patents involving SPRYD4

    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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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