Aliases for SPRYD4 Gene

Aliases for SPRYD4 Gene

  • SPRY Domain Containing 4 2 3 5
  • SPRY Domain-Containing Protein 4 3 4
  • DKFZp686N0877 2
  • SPRYD4 5

External Ids for SPRYD4 Gene

Previous GeneCards Identifiers for SPRYD4 Gene

  • GC12P055149
  • GC12P056863
  • GC12P053905

Summaries for SPRYD4 Gene

GeneCards Summary for SPRYD4 Gene

SPRYD4 (SPRY Domain Containing 4) is a Protein Coding gene. An important paralog of this gene is RFPL2.

Additional gene information for SPRYD4 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SPRYD4 Gene

Genomics for SPRYD4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SPRYD4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12J056467 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 623.7 +0.2 246 2.8 BRCA1 SP1 HNRNPL CREB1 GATAD2A CTCF PRDM10 ZNF629 TFE3 SIX5 SPRYD4 MIP lnc-MIP-1 ENSG00000285528
GH12J056519 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 14.9 +56.5 56538 11.3 CREB1 PRDM10 ZNF629 ZNF512 IKZF1 KDM1A ZNF692 FOXA1 PRDM1 ZNF143 RBMS2 SPRYD4 piR-32214-127 BAZ2A
GH12J056358 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas 10.6 -108.8 -108777 4 SP1 HNRNPL CREB1 GATAD2A PRDM10 REST ZNF629 ZNF512 RFX1 IKZF1 STAT2 lnc-IL23A-4 ENSG00000257303 IL23A PAN2 ZC3H10 NEMP1 BAZ2A ENSG00000258317 PHC1P1
GH12J056564 Promoter/Enhancer 1.4 Ensembl ENCODE CraniofacialAtlas 10.1 +99.6 99631 7.7 GATAD2A PRDM10 ZNF512 LEF1 SOX13 IKZF1 ZNF692 GABPA RXRB IRF2 RBMS2 GLS2 BAZ2A SPRYD4 APOF SNORD59A SNORD59B ATP5F1B NACA RF00017-1162
GH12J056487 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 7.2 +19.4 19426 2 SP1 HNRNPL CREB1 PRDM10 TFE3 NFKBIZ KDM1A ZNF692 RCOR2 FOS GLS2 ENSG00000285528 lnc-MIP-2 RBMS2 NEMP1 ZBTB39 PAN2 BAZ2A DNAJC14 PRIM1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SPRYD4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SPRYD4

Top Transcription factor binding sites by QIAGEN in the SPRYD4 gene promoter:
  • AP-2alpha
  • AP-2alpha isoform 2
  • AP-2alpha isoform 3
  • AP-2alpha isoform 4
  • AP-2alphaA
  • ATF-2
  • c-Myc
  • Max
  • Sp1

Genomic Locations for SPRYD4 Gene

Genomic Locations for SPRYD4 Gene
chr12:56,468,578-56,479,708
(GRCh38/hg38)
Size:
11,131 bases
Orientation:
Plus strand
chr12:56,862,301-56,864,769
(GRCh37/hg19)
Size:
2,469 bases
Orientation:
Plus strand

Genomic View for SPRYD4 Gene

Genes around SPRYD4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPRYD4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPRYD4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPRYD4 Gene

Proteins for SPRYD4 Gene

  • Protein details for SPRYD4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WW59-SPRY4_HUMAN
    Recommended name:
    SPRY domain-containing protein 4
    Protein Accession:
    Q8WW59
    Secondary Accessions:
    • A8K7A5

    Protein attributes for SPRYD4 Gene

    Size:
    207 amino acids
    Molecular mass:
    23129 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SPRYD4 Gene

Post-translational modifications for SPRYD4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SPRYD4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SPRYD4 Gene

Domains & Families for SPRYD4 Gene

Gene Families for SPRYD4 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for SPRYD4 Gene

InterPro:
Blocks:
  • Butyrophylin C-terminal DUF signature
ProtoNet:

Suggested Antigen Peptide Sequences for SPRYD4 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ53756, highly similar to SPRY domain-containing protein 4 (B4DUC9_HUMAN)
  • SPRY domain-containing protein 4 (SPRY4_HUMAN)
genes like me logo Genes that share domains with SPRYD4: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for SPRYD4 Gene

Function for SPRYD4 Gene

Phenotypes From GWAS Catalog for SPRYD4 Gene

Gene Ontology (GO) - Molecular Function for SPRYD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IPI 27499296
genes like me logo Genes that share ontologies with SPRYD4: view
genes like me logo Genes that share phenotypes with SPRYD4: view

Animal Model Products

CRISPR Products

miRNA for SPRYD4 Gene

miRTarBase miRNAs that target SPRYD4

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPRYD4

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SPRYD4 Gene

Localization for SPRYD4 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SPRYD4 gene
Compartment Confidence
nucleus 5
mitochondrion 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SPRYD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 17852359
genes like me logo Genes that share ontologies with SPRYD4: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for SPRYD4 Gene

Pathways & Interactions for SPRYD4 Gene

PathCards logo

SuperPathways for SPRYD4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SPRYD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008150 biological_process ND --
genes like me logo Genes that share ontologies with SPRYD4: view

No data available for Pathways by source and SIGNOR curated interactions for SPRYD4 Gene

Drugs & Compounds for SPRYD4 Gene

No Compound Related Data Available

Transcripts for SPRYD4 Gene

mRNA/cDNA for SPRYD4 Gene

1 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPRYD4

Alternative Splicing Database (ASD) splice patterns (SP) for SPRYD4 Gene

No ASD Table

Relevant External Links for SPRYD4 Gene

GeneLoc Exon Structure for
SPRYD4

Expression for SPRYD4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SPRYD4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SPRYD4 Gene

This gene is overexpressed in Liver (x7.8).

Protein differential expression in normal tissues from HIPED for SPRYD4 Gene

This gene is overexpressed in Liver, secretome (28.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SPRYD4 Gene



Protein tissue co-expression partners for SPRYD4 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SPRYD4

SOURCE GeneReport for Unigene cluster for SPRYD4 Gene:

Hs.128676

Evidence on tissue expression from TISSUES for SPRYD4 Gene

  • Liver(4.6)
  • Nervous system(4.3)
genes like me logo Genes that share expression patterns with SPRYD4: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SPRYD4 Gene

Orthologs for SPRYD4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SPRYD4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SPRYD4 30 31
  • 99.84 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SPRYD4 30 31
  • 89.86 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia SPRYD4 30 31
  • 89.05 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Spryd4 30 17 31
  • 87.92 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Spryd4 30
  • 87.6 (n)
Oppossum
(Monodelphis domestica)
Mammalia SPRYD4 31
  • 73 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia SPRYD4 31
  • 62 (a)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SPRYD4 31
  • 57 (a)
OneToOne
Zebrafish
(Danio rerio)
Actinopterygii spryd4 30 31
  • 57.82 (n)
OneToOne
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 25 (a)
OneToMany
Species where no ortholog for SPRYD4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for SPRYD4 Gene

ENSEMBL:
Gene Tree for SPRYD4 (if available)
TreeFam:
Gene Tree for SPRYD4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SPRYD4: view image

Paralogs for SPRYD4 Gene

(1) SIMAP similar genes for SPRYD4 Gene using alignment to 1 proteins:

  • SPRY4_HUMAN

Pseudogenes.org Pseudogenes for SPRYD4 Gene

genes like me logo Genes that share paralogs with SPRYD4: view

Variants for SPRYD4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SPRYD4 Gene

SNP ID Clinical significance and condition Chr 12 pos Variation AA Info Type
681506 Likely Benign: not provided 56,475,621(+) T/C THREE_PRIME_UTR_VARIANT,INTRON_VARIANT
782561 Benign: not provided 56,474,882(+) C/T SYNONYMOUS_VARIANT,THREE_PRIME_UTR_VARIANT
rs2657881 - p.Met50Thr

Additional dbSNP identifiers (rs#s) for SPRYD4 Gene

Structural Variations from Database of Genomic Variants (DGV) for SPRYD4 Gene

Variant ID Type Subtype PubMed ID
esv2667114 CNV deletion 23128226
esv3629598 CNV loss 21293372
nsv1052713 CNV gain 25217958
nsv482992 CNV gain+loss 15286789

Variation tolerance for SPRYD4 Gene

Residual Variation Intolerance Score: 51.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.90; 18.79% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SPRYD4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SPRYD4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SPRYD4 Gene

Disorders for SPRYD4 Gene

Additional Disease Information for SPRYD4

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform

No disorders were found for SPRYD4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SPRYD4 Gene

Publications for SPRYD4 Gene

  1. Genome-wide association study identifies multiple loci influencing human serum metabolite levels. (PMID: 22286219) Kettunen J … Ripatti S (Nature genetics 2012) 3 41
  2. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 41
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  4. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  5. Novel tumor suppressor SPRYD4 inhibits tumor progression in hepatocellular carcinoma by inducing apoptotic cell death. (PMID: 30238408) Zahid KR … Raza U (Cellular oncology (Dordrecht) 2019) 3

Products for SPRYD4 Gene

Sources for SPRYD4 Gene