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SPDYE5 Gene

pseudogene   GIFtS: 31
GCID: GC07P075123

Speedy/RINGO Cell Cycle Regulator Family Member E5

(Previous name: speedy homolog E5 (Xenopus laevis))
  Search for SPDYE5
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(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
Speedy/RINGO Cell Cycle Regulator Family Member E51 2
Speedy Homolog E5 (Xenopus Laevis)1
Putative Speedy Protein E52
Speedy Homolog E52

External Ids:    HGNC: 354641   Entrez Gene: 4425902   Ensembl: ENSG000001700927   UniProtKB: A6NIY43   

Export aliases for SPDYE5 gene to outside databases

Previous GC identifers: GC07P074964 GC07P074457


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SPDYE5 Gene:
SPDYE5 (speedy/RINGO cell cycle regulator family member E5) is a pseudogene.


(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:
NC_000007.14  NT_007933.16  NC_018918.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SPDYE5 gene promoter:
         RFX1   AML1a   SREBP-1c   E47   SREBP-1b   Evi-1   PPAR-gamma1   SREBP-1a   Hand1   PPAR-gamma2   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
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Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SPDYE5


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

Entrez Gene cytogenetic band: 7q11.23   Ensembl cytogenetic band:  7q11.23   HGNC cytogenetic band: 7q11.23

SPDYE5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SPDYE5 gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07P075123:  view genomic region     (about GC identifiers)

Start:
75,123,401 bp from pter      End:
75,133,628 bp from pter
Size:
10,228 bases      Orientation:
plus strand

1 alternative location:
Chr7+,CRA_TCAG 74,457,363-74,466,692     

(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, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: SPDE5_HUMAN, A6NIY4 (See protein sequence)
Recommended Name: Putative speedy protein E5  
Size: 337 amino acids; 40483 Da
Caution: Could be the product of a pseudogene

Explore the universe of human proteins at neXtProt for SPDYE5: NX_A6NIY4

Explore proteomics data for SPDYE5 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SPDYE5 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001092905.2  

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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:
    SPDY: Speedy homologs

    1 InterPro protein domain:
     IPR020984 Cell_cycle_regulatory_Spy1

    Graphical View of Domain Structure for InterPro Entry A6NIY4

    ProtoNet protein and cluster: A6NIY4

    UniProtKB/Swiss-Prot: SPDE5_HUMAN, A6NIY4
    Similarity: Belongs to the Speedy/Ringo family


    SPDYE5 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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    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 COMPARTMENTS: 

    CompartmentConfidence
    mitochondrion2
    nucleus2
    cytosol1
    endoplasmic reticulum1
    peroxisome1

    (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 SPDYE5
    Interactions:

        Search GeneGlobe Interaction Network for SPDYE5

    (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
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    Browse Tocris compounds for SPDYE5 (SPDE5)



    (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,
    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 SPDYE5 gene: 
    NM_001099435.2  

    Unigene Cluster for SPDYE5:

    Speedy homolog E5 (Xenopus laevis)
    Hs.632298  [show with all ESTs]
    Unigene Representative Sequence: NM_001099435
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000455862 ENST00000450699(uc011kfy.2)
    miRNA
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    7 DOTS entries:

    DT.102843968  DT.121116988  DT.121117015  DT.121117029  DT.426037  DT.92469839  DT.95082503 

    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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    SPDYE5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SPDYE5 Expression
    About this image

    SPDYE5 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SPDYE5 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.632298
        Custom PCR Arrays for SPDYE5
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    In Situ
    Assay Products:
     

     
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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 chimp.

    Orthologs for SPDYE5 gene from 1 species (see representative species )    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chimpanzee
    (Pan troglodytes)
    Mammalia LOC7422651 putative speedy protein-like protein LOC442572-like 98.25(n)
    96.3(a)
      742265  XM_003318520.1  XP_003318568.1 


    ENSEMBL Gene Tree for SPDYE5 (if available)
    TreeFam Gene Tree for SPDYE5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SPDYE5 gene
    9 SIMAP similar genes for SPDYE5 using alignment to 1 protein entry:     SPDE5_HUMAN:
    SPDYE1    SPDYB2-L1    SPDYE2    SPDYE2B    SPDYE6    SPDYE7P
    SPDYE3    SPDYE4    SPY1

    SPDYE5 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 SPDYE5 (see all 216)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs776507891,2
    C--75122300(+) GTCTTA/GAACTG 1 -- us2k10--------
    rs1506419441,2
    --75122361(+) AAGCAG/TGAGCC 1 -- us2k10--------
    rs3774458981,2
    C--75122657(+) AGGACA/GTGTGT 1 -- us2k10--------
    rs10621171,2
    C--75122897(-) AGAAAC/TGATGA 1 -- us2k11Minor allele frequency- T:0.50NA 2
    rs2007032491,2
    C--75122954(+) TGGACA/TCTGAA 1 -- us2k10--------
    rs39264761,2
    --75122978(-) CTCTTT/CGTCTC 1 -- us2k11Minor allele frequency- C:0.00NA 2
    rs39264751,2
    C--75123195(-) CATCGC/TTCATG 1 -- us2k12Minor allele frequency- T:0.00NA 4
    rs39264791,2
    C,F--75123214(-) TGGTCG/AGAATC 1 -- us2k15Minor allele frequency- A:0.05NA 146
    rs624777191,2
    C--75123237(+) GGACCG/AGACTC 1 -- us2k11Minor allele frequency- A:0.50NA 2
    rs1866477551,2
    --75123238(+) GACCGA/GACTCC 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for SPDYE5 (75123401 - 75133628 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for SPDYE5:    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv120n16CNV Deletion17901297
    nsv831036CNV Loss17160897
    nsv528969CNV Gain19592680
    nsv482105CNV Gain20164927
    nsv888381CNV Gain21882294
    esv21917CNV Gain19812545
    nsv8157CNV Gain+Loss18304495
    essv14753CNV CNV17122850
    dgv2102e1CNV Complex17122850

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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.)
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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 article for SPDYE5 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SPDYE5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence of human chromosome 7. (PubMed id 12853948)1, 2 Hillier L.W.... Wilson R.K. (Nature 2003)

    (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: 442590 HGNC: 35464 Ensembl:ENSG00000170092 euGenes: HUgn442590 ECgene: SPDYE5
    H-InvDB: SPDYE5

    (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 SPDYE5 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 SPDYE5 gene:
    Search GeneIP for patents involving SPDYE5

    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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