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Aliases for SPDYA Gene

Aliases for SPDYA Gene

  • Speedy/RINGO Cell Cycle Regulator Family Member A 2 3 5
  • Rapid Inducer Of G2/M Progression In Oocytes A 3 4
  • HSpy/Ringo A 3 4
  • Speedy-1 3 4
  • RINGO A 3 4
  • SPDY1 3 4
  • SPY1 3 4
  • Speedy Homolog A (Xenopus Laevis) 2
  • Speedy Homolog 1 (Drosophila) 2
  • Speedy Homolog A 3
  • Speedy Protein A 3
  • RINGO3 3
  • RINGOA 3

External Ids for SPDYA Gene

Previous HGNC Symbols for SPDYA Gene

  • SPDY1

Previous GeneCards Identifiers for SPDYA Gene

  • GC02P028828
  • GC02P029007

Summaries for SPDYA Gene

GeneCards Summary for SPDYA Gene

SPDYA (Speedy/RINGO Cell Cycle Regulator Family Member A) is a Protein Coding gene. Among its related pathways are Oocyte meiosis. Gene Ontology (GO) annotations related to this gene include protein kinase binding. An important paralog of this gene is SPDYC.

UniProtKB/Swiss-Prot for SPDYA Gene

  • Regulates the G1/S phase transition of the cell cycle by binding and activating CDK1 and CDK2 (PubMed:12972555). Contributes to CDK2 activation without promoting CDK2 phosphorylation, by inducing a conformation change of the CDK2 T-loop that obstructs the substrate-binding cleft prior to kinase activation (PubMed:28666995). Mediates cell survival during the DNA damage process through activation of CDK2 (PubMed:12839962).

Gene Wiki entry for SPDYA Gene

Additional gene information for SPDYA Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SPDYA Gene

Genomics for SPDYA Gene

GeneHancer (GH) Regulatory Elements for SPDYA Gene

Promoters and enhancers for SPDYA 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
GH02I028809 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 562.1 +28.1 28113 1.4 MXI1 MAZ RFX1 MAX SIN3A USF2 BMI1 SP1 E2F1 POLR2A SPDYA ENSG00000273233 TRMT61B TOGARAM2
GH02I028747 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 12 -30.4 -30372 9.3 HDGF PKNOX1 CLOCK FOXA2 SMAD1 MLX ARID4B SIN3A DMAP1 YY1 PPP1CB LOC100505774 TRMT61B TOGARAM2 SPDYA ENSG00000230730 WDR43 FOSL2
GH02I028582 Enhancer 1.7 FANTOM5 Ensembl ENCODE dbSUPER 11.6 -198.4 -198380 3.8 HDGF PKNOX1 ARNT SIN3A ZNF766 FOS SP3 REST SMARCB1 ZNF592 PPP1CB SPDYA ENSG00000230730 FOSL2 PLB1 SNRPGP7
GH02I028609 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 10.4 -169.7 -169709 6.6 PKNOX1 SIN3A FEZF1 ZNF2 IRF4 BRCA1 GLIS2 FOS DEK TSHZ1 ENSG00000230730 SUPT7L PPP1CB LOC100505774 SPDYA PLB1 TRMT61B SNRPGP7
GH02I028593 Enhancer 1.4 Ensembl ENCODE dbSUPER 11.5 -187.0 -186958 3.8 PKNOX1 ARID4B SIN3A ZNF2 ZNF48 ETS1 ZNF766 ZNF143 ATF7 FOS ENSG00000230730 PPP1CB SPDYA LOC100505774 PLB1 C2orf71 SNRPGP7
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SPDYA on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SPDYA gene promoter:

Genomic Locations for SPDYA Gene

Genomic Locations for SPDYA Gene
chr2:28,782,517-28,850,611
(GRCh38/hg38)
Size:
68,095 bases
Orientation:
Plus strand
chr2:29,005,383-29,073,477
(GRCh37/hg19)

Genomic View for SPDYA Gene

Genes around SPDYA on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for SPDYA Gene

Proteins for SPDYA Gene

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

    Protein Symbol:
    Q5MJ70-SPDYA_HUMAN
    Recommended name:
    Speedy protein A
    Protein Accession:
    Q5MJ70
    Secondary Accessions:
    • Q53R05
    • Q5MJ69

    Protein attributes for SPDYA Gene

    Size:
    313 amino acids
    Molecular mass:
    36463 Da
    Quaternary structure:
    • Interacts with CDK1 (By similarity). Interacts with CDK2 (PubMed:11980914, PubMed:12839962, PubMed:12972555, PubMed:28666995). May interact with CDKN1B/KIP1 (PubMed:12972555). Identified in a complex with CDK2 and CDKN1B/KIP1, where it interacts primarily with CDK2 (PubMed:12972555, PubMed:28666995).

    Three dimensional structures from OCA and Proteopedia for SPDYA Gene

    Alternative splice isoforms for SPDYA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SPDYA Gene

Post-translational modifications for SPDYA Gene

No Post-translational modifications

Other Protein References for SPDYA Gene

No data available for DME Specific Peptides for SPDYA Gene

Domains & Families for SPDYA Gene

Gene Families for SPDYA Gene

Protein Domains for SPDYA Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SPDYA Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q5MJ70

UniProtKB/Swiss-Prot:

SPDYA_HUMAN :
  • The C-terminus is required for CDK2-activation, but not CDK2-binding.
  • Belongs to the Speedy/Ringo family.
Domain:
  • The C-terminus is required for CDK2-activation, but not CDK2-binding.
Family:
  • Belongs to the Speedy/Ringo family.
genes like me logo Genes that share domains with SPDYA: view

Function for SPDYA Gene

Molecular function for SPDYA Gene

UniProtKB/Swiss-Prot Function:
Regulates the G1/S phase transition of the cell cycle by binding and activating CDK1 and CDK2 (PubMed:12972555). Contributes to CDK2 activation without promoting CDK2 phosphorylation, by inducing a conformation change of the CDK2 T-loop that obstructs the substrate-binding cleft prior to kinase activation (PubMed:28666995). Mediates cell survival during the DNA damage process through activation of CDK2 (PubMed:12839962).

Phenotypes From GWAS Catalog for SPDYA Gene

Gene Ontology (GO) - Molecular Function for SPDYA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0019901 protein kinase binding IPI,IEA 11980914
GO:0030295 protein kinase activator activity IDA 28666995
genes like me logo Genes that share ontologies with SPDYA: view
genes like me logo Genes that share phenotypes with SPDYA: view

Animal Models for SPDYA Gene

MGI Knock Outs for SPDYA:

Animal Model Products

miRNA for SPDYA Gene

miRTarBase miRNAs that target SPDYA

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SPDYA Gene

Localization for SPDYA Gene

Subcellular locations from UniProtKB/Swiss-Prot for SPDYA 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 SPDYA gene
Compartment Confidence
nucleus 5
mitochondrion 2
cytosol 2
plasma membrane 1
extracellular 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SPDYA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,IEA 11980914
GO:0005654 nucleoplasm IDA --
genes like me logo Genes that share ontologies with SPDYA: view

Pathways & Interactions for SPDYA Gene

SuperPathways for SPDYA Gene

SuperPathway Contained pathways
1 Oocyte meiosis
genes like me logo Genes that share pathways with SPDYA: view

Pathways by source for SPDYA Gene

Gene Ontology (GO) - Biological Process for SPDYA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000082 G1/S transition of mitotic cell cycle IDA 11980914
GO:0006974 cellular response to DNA damage stimulus IDA,IEA 12839962
GO:0007049 cell cycle IEA --
GO:0007140 male meiotic nuclear division IEA,ISS --
GO:0007275 multicellular organism development IEA --
genes like me logo Genes that share ontologies with SPDYA: view

No data available for SIGNOR curated interactions for SPDYA Gene

Drugs & Compounds for SPDYA Gene

No Compound Related Data Available

Transcripts for SPDYA Gene

Unigene Clusters for SPDYA Gene

Speedy homolog A (Xenopus laevis):
Representative Sequences:

Clone Products

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

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3a · 3b · 3c · 3d ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b · 7c ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11 ^ 12a · 12b ^
SP1: - - - - - - - -
SP2: - - - - - - - - -
SP3: - - - - - - - - - - - -
SP4: - - - - - - - -
SP5: - - - - - - - -
SP6: - - - - -
SP7: - - -
SP8: - - - -
SP9: - -
SP10:
SP11: -
SP12:
SP13:

ExUns: 13a · 13b ^ 14a · 14b · 14c
SP1: -
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8: - -
SP9:
SP10:
SP11:
SP12:
SP13:

Relevant External Links for SPDYA Gene

GeneLoc Exon Structure for
SPDYA
ECgene alternative splicing isoforms for
SPDYA

Expression for SPDYA Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Testis (x26.0).

Protein differential expression in normal tissues from HIPED for SPDYA Gene

This gene is overexpressed in Serum (69.0).

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



Protein tissue co-expression partners for SPDYA Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SPDYA Gene:

SPDYA

SOURCE GeneReport for Unigene cluster for SPDYA Gene:

Hs.511956

mRNA Expression by UniProt/SwissProt for SPDYA Gene:

Q5MJ70-SPDYA_HUMAN
Tissue specificity: Highly expressed in testis. Expressed at a low level in wide range of tissues including bone marrow, brain, heart, kidney, colon, liver, placenta, spleen, skeletal muscle, salivary gland, thyroid gland, thymus, trachea and uterus. Expressed at a slightly higher level in adrenal gland, cerebellum, small intestine, lung, prostate and trachea. Expression is cell cycle-dependent, being restricted to cells in G1/S phase.
genes like me logo Genes that share expression patterns with SPDYA: view

No data available for Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SPDYA Gene

Orthologs for SPDYA Gene

This gene was present in the common ancestor of chordates.

Orthologs for SPDYA Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SPDYA 33 34
  • 99.68 (n)
cow
(Bos Taurus)
Mammalia SPDYA 33 34
  • 92.52 (n)
dog
(Canis familiaris)
Mammalia SPDYA 33 34
  • 92.45 (n)
rat
(Rattus norvegicus)
Mammalia Spdya 33
  • 89.64 (n)
mouse
(Mus musculus)
Mammalia Spdya 33 16 34
  • 88.06 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SPDYA 34
  • 68 (a)
OneToOne
chicken
(Gallus gallus)
Aves SPDYA 33 34
  • 70.71 (n)
lizard
(Anolis carolinensis)
Reptilia SPDYA 34
  • 76 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia spdya 33
  • 66.34 (n)
African clawed frog
(Xenopus laevis)
Amphibia ls27 33
zebrafish
(Danio rerio)
Actinopterygii spdya 33 34
  • 67.92 (n)
Dr.15895 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13761 33
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 37 (a)
OneToMany
Species where no ortholog for SPDYA was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SPDYA Gene

ENSEMBL:
Gene Tree for SPDYA (if available)
TreeFam:
Gene Tree for SPDYA (if available)

Paralogs for SPDYA Gene

Paralogs for SPDYA Gene

(2) SIMAP similar genes for SPDYA Gene using alignment to 3 proteins:

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

Variants for SPDYA Gene

Sequence variations from dbSNP and Humsavar for SPDYA Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000034166 -- 28,822,255(+) A/G intron_variant
rs1000096406 -- 28,826,071(+) G/A intron_variant
rs1000121486 -- 28,830,039(+) T/C intron_variant
rs1000239799 -- 28,810,701(+) G/C/T upstream_transcript_variant
rs1000311080 -- 28,846,203(+) G/A genic_downstream_transcript_variant, intron_variant

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

Variant ID Type Subtype PubMed ID
nsv471901 CNV novel sequence insertion 20440878
nsv819532 CNV loss 19587683

Variation tolerance for SPDYA Gene

Residual Variation Intolerance Score: 51.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.49; 29.03% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SPDYA Gene

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

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

Disorders for SPDYA Gene

Additional Disease Information for SPDYA

No disorders were found for SPDYA Gene.

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

Publications for SPDYA Gene

  1. Identification and comparative analysis of multiple mammalian Speedy/Ringo proteins. (PMID: 15611625) Cheng A … Solomon MJ (Cell cycle (Georgetown, Tex.) 2005) 2 3 4 58
  2. Human Spy1 promotes survival of mammalian cells following DNA damage. (PMID: 12839962) Barnes EA … Donoghue DJ (Cancer research 2003) 2 3 4 58
  3. Human Speedy: a novel cell cycle regulator that enhances proliferation through activation of Cdk2. (PMID: 11980914) Porter LA … Donoghue DJ (The Journal of cell biology 2002) 2 3 4 58
  4. Structural basis of divergent cyclin-dependent kinase activation by Spy1/RINGO proteins. (PMID: 28666995) McGrath DA … Rubin SM (The EMBO journal 2017) 3 4 58
  5. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4 58

Products for SPDYA Gene

Sources for SPDYA Gene

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