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

SPIN3 Gene

protein-coding   GIFtS: 40
GCID: GC0XM057019

Spindlin Family, Member 3

  Search for SPIN3
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

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Spindlin Family, Member 31 2
Spindlin-Like Protein 32 3
SPIN-32 3
bA445O16.12
BA445O16.1 (DXF34)2
spindlin-32

External Ids:    HGNC: 272721   Entrez Gene: 1699812   Ensembl: ENSG000002042717   UniProtKB: Q5JUX03   
ORGUL members:         
NONCODE14:n407669      

Export aliases for SPIN3 gene to outside databases

Previous GC identifers: GC0XM056903 GC0XM054066


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

GeneCards Summary for SPIN3 Gene: 
SPIN3 (spindlin family, member 3) is a protein-coding gene, and is affiliated with the lncRNA class. An important paralog of this gene is SPIN2B.


(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_000023.10  NC_018934.2  NT_011630.14  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SPIN3 gene promoter:
         RP58   RFX1   LHX3b/Lhx3b   FOXL1   POU2F2C   HSF2   COMP1   LHX3a/Lhx3a   POU2F2B   Pax-4a   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSPIN3 promoter sequence
   Search SABiosciences Chromatin IP Primers for SPIN3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SPIN3


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

Entrez Gene cytogenetic band: Xp11.21   Ensembl cytogenetic band:  Xp11.21   HGNC cytogenetic band: Xp11.22

SPIN3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SPIN3 gene location

GeneLoc information about chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM057019:  view genomic region     (about GC identifiers)

Start:
57,002,803 bp from pter      End:
57,021,988 bp from pter
Size:
19,186 bases      Orientation:
minus 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: SPIN3_HUMAN, Q5JUX0 (See protein sequence)
Recommended Name: Spindlin-3  
Size: 258 amino acids; 29207 Da
Secondary accessions: B2RUW3 B7Z8W2 Q8N5D9
Alternative splicing: 2 isoforms:  Q5JUX0-1   Q5JUX0-2   (May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay)

Explore the universe of human proteins at neXtProt for SPIN3: NX_Q5JUX0

Explore proteomics data for SPIN3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q5JUX0

  • SPIN3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SPIN3 Protein Expression
    REFSEQ proteins: NP_001010862.2  
    ENSEMBL proteins: 
     ENSP00000436805   ENSP00000433337   ENSP00000364054  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR003671 Spin_Ssty

    Graphical View of Domain Structure for InterPro Entry Q5JUX0

    ProtoNet protein and cluster: Q5JUX0

    1 Blocks protein domain: IPB003671 Spindlin/spermiogenesis-specific protein

    UniProtKB/Swiss-Prot: SPIN3_HUMAN, Q5JUX0
    Similarity: Belongs to the SPIN/STSY family


    SPIN3 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

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for SPIN3 
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SPIN3 
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    SwitchGear 3'UTR luciferase reporter plasmidSPIN3 3' UTR sequence
    Inhib. RNA
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    (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 SPIN3

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

    2 Interacting proteins for SPIN3 (Q5JUX03 ENSP000003640544) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ARRB2P321213I2D: score=1 
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    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:0007276gamete generation IEA--

    SPIN3 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 SPIN3

    Search CenterWatch for drugs/clinical trials and news about SPIN3

    (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 SPIN3 gene: 
    NM_001010862.2  

    Unigene Cluster for SPIN3:

    Spindlin family, member 3
    Hs.522672  [show with all ESTs]
    Unigene Representative Sequence: NM_001010862
    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000475785(uc004duw.4 uc004duv.4) ENST00000478405(uc004duu.4)
    ENST00000374919(uc010nkj.2 uc004dux.1)
    miRNA
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    8/15 QIAGEN miScript miRNA Assays for microRNAs that regulate SPIN3 (see all 15):
    hsa-miR-582-3p hsa-miR-4291 hsa-miR-3618 hsa-miR-934 hsa-miR-513a-3p hsa-miR-589* hsa-miR-3157-5p hsa-miR-378b
    SwitchGear 3'UTR luciferase reporter plasmidSPIN3 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for SPIN3
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SPIN3
    Clone
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    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: SPIN3 (NM_001010862)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SPIN3
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SPIN3
    Sirion Biotech Customized lentivirus for stable overexpression of SPIN3 
                         Customized lentivirus expression plasmids for stable overexpression of SPIN3 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SPIN3
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SPIN3

    Additional mRNA sequence: 

    AK123122.1 AK127485.1 AK304047.1 AL832091.1 BC016437.1 BC018073.1 BC032490.1 BC146899.1 
    BC146906.1 NR_027139.1 

    6 DOTS entries:

    DT.95119483  DT.101980111  DT.92415257  DT.307326  DT.100018813  DT.100658748 

    24/59 AceView cDNA sequences (see all 59):

    BC016437 BX442317 BX092045 AJ271379 BQ888743 AK127485 AI341642 BC018073 
    AA628945 BC032490 CR614652 CB306541 BX375805 CA390821 CK821851 AK123122 
    BE018701 BQ893802 AA910404 BX370547 AI801681 BG576656 BI913930 Z41130 

    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

    SPIN3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTGTTCTGAA
    SPIN3 Expression
    About this image


    See SPIN3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SPIN3

    SOURCE GeneReport for Unigene cluster: Hs.522672
        SABiosciences Custom PCR Arrays for SPIN3
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for SPIN3
    SABiosciences RT2 qPCR Primer Assay in human, mouse / rat SPIN3
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SPIN3
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPIN3

    (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 SPIN3 gene from 2/5 species (see all 5)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Spin35 spindlin family, member 3   --   3 (7.58 cM) 22525287 
    zebrafish
    (Danio rerio)
    Actinopterygii SPIN2B6
    CABZ01112877.16
    (see all 3)
    Uncharacterized protein
    (see all 3)
    80(a)
    59(a)
    (see all 3)
    1 ↔ many
    possible ortholog
    (see all 3)
    10(2595456-2607514)
    2(55803426-55814829)


    ENSEMBL Gene Tree for SPIN3 (if available)
    TreeFam Gene Tree for SPIN3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SPIN3 gene
    SPIN2B2  SPIN2A2  SPIN12  SPIN42  
    4 SIMAP similar genes for SPIN3 using alignment to 1 protein entry:     SPIN3_HUMAN:
    SPIN1    SPIN2A    SPIN4    SPIN2B

    SPIN3 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) 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

    10/203 SNPs in SPIN3 are shown (see all 203)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr X posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs345540261,2
    C--57002309(+) CTTTT-/AACTTT 1 -- int10--------
    rs785574471,2
    C--57002310(+) TTTTAA/CCTTTT 1 -- int10--------
    rs757998941,2
    C--57002311(+) TTTAAC/TTTTTC 1 -- int10--------
    rs1995752171,2
    --57002311(+) TTTAA-/CTTTTC 1 -- int10--------
    rs1457364631,2
    C--57002726(+) AAACTG/TTATCT 1 -- int10--------
    rs1813964921,2
    --57002846(+) AAAAAC/TATTAC 1 -- nc-transcript-variant0--------
    rs1841749871,2
    --57002873(+) TACATA/GTGTAA 1 -- nc-transcript-variant0--------
    rs1884547401,2
    C--57003202(+) ATATAC/TTTAGT 1 -- nc-transcript-variant0--------
    rs1807106991,2
    --57003390(+) GTTCAG/TTTAAA 1 -- nc-transcript-variant0--------
    rs70563481,2
    C,F,H--57003557(+) TCAAAG/AGAGGA 1 -- nc-transcript-variant10Minor allele frequency- A:0.07NS EA NA 1092

    HapMap Linkage Disequilibrium report for SPIN3 (57002803 - 57021988 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for SPIN3: --
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing SPIN3
    DNA2.0 Custom Variant and Variant Library Synthesis for SPIN3

    (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
      --

    (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 SPIN3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SPIN3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The DNA sequence of the human X chromosome. (PubMed id 15772651)1, 2 Ross M.T.... Bentley D.R. (2005)
    2. 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)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Targeted ubiquitination and degradation of G-protein-c oupled receptor kinase 5 by the DDB1-CUL4 ubiquitin ligase complex. (PubMed id 22952844)1 Wu Z....Ma L. (2012)
    5. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
    6. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (2008)
    7. Functional specialization of beta-arrestin interactions revealed by proteomic analysis. (PubMed id 17620599)1 Xiao K....Lefkowitz R.J. (2007)
    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. 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. (2002)

    (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: 169981 HGNC: 27272 AceView: SPIN3 Ensembl:ENSG00000204271 euGenes: HUgn169981
    ECgene: SPIN3 H-InvDB: SPIN3

    (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 SPIN3 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 SPIN3 gene:
    Search GeneIP for patents involving SPIN3

    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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     Proteins for SPIN3
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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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