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SPATA3 Gene

protein-coding   GIFtS: 41
GCID: GC02P231860

Spermatogenesis Associated 3

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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
Spermatogenesis Associated 31 2     Spermatogenesis-Associated Protein 32
Testis And Spermatogenesis Cell-Related Protein 12 3     Testis And Spermatogenesis Cell Apoptosis Related Gene 12
Testis Spermatocyte Apoptosis-Related Protein 12 3     C16orf555
TSARG12 3     SPATA335

External Ids:    HGNC: 178841   Entrez Gene: 1305602   Ensembl: ENSG000001736997   OMIM: 6154095   UniProtKB: Q8NHX43   

Export aliases for SPATA3 gene to outside databases

Previous GC identifers: GC00U991161 GC02P232063 GC02P231686 GC02P231569 GC02P223702


(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 SPATA3 Gene:
SPATA3 (spermatogenesis associated 3) is a protein-coding gene.


(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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Regulatory elements:
   Regulatory transcription factor binding sites in the SPATA3 gene promoter:
         HOXA9   HOXA9B   AML1a   p53   GR-beta   AP-4   Meis-1b   CREB   deltaCREB   Meis-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSPATA3 promoter sequence
   Search Chromatin IP Primers for SPATA3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SPATA3


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

Entrez Gene cytogenetic band: 2q37.1   Ensembl cytogenetic band:  2q37.1   HGNC cytogenetic band: 2q37.1

SPATA3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SPATA3 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P231860:  view genomic region     (about GC identifiers)

Start:
231,860,836 bp from pter      End:
231,889,770 bp from pter
Size:
28,935 bases      Orientation:
plus strand

(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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: SPTA3_HUMAN, Q8NHX4 (See protein sequence)
Recommended Name: Spermatogenesis-associated protein 3  
Size: 183 amino acids; 19949 Da
Secondary accessions: Q86WX5 Q8N9Y6

Explore the universe of human proteins at neXtProt for SPATA3: NX_Q8NHX4

Explore proteomics data for SPATA3 at MOPED


See SPATA3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_620712.2  
ENSEMBL proteins: 
 ENSP00000399514   ENSP00000388895   ENSP00000403804   ENSP00000395644   ENSP00000388741  
 ENSP00000404510   ENSP00000411374   ENSP00000436378  

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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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1 InterPro protein domain:
 IPR026717 SPATA3

Graphical View of Domain Structure for InterPro Entry Q8NHX4

ProtoNet protein and cluster: Q8NHX4


Find genes that share domains with SPATA3           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003674molecular_function ND--
     
Find genes that share ontologies with SPATA3           About GenesLikeMe


Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for SPATA3

miRNA
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miRTarBase miRNAs that target SPATA3:
hsa-mir-335-5p (MIRT019156)

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SwitchGear 3'UTR luciferase reporter plasmidSPATA3 3' UTR sequence
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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
nucleus3
cytosol1
extracellular1
plasma membrane1

Gene Ontology (GO): 1 cellular component term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005575cellular_component ND--

Find genes that share ontologies with SPATA3           About GenesLikeMe


(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 SPATA3
Interactions:

    Search GeneGlobe Interaction Network for SPATA3

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

1 Interacting protein for SPATA3 (ENSP000003995144) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
CCNB1IP1ENSP000003373964STRING: ENSP00000337396
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(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
  Browse compounds at ApexBio 

Browse Tocris compounds for SPATA3 (SPTA3)



(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,
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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for SPATA3 gene: 
NM_139073.3  

9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000424440(uc010zmd.2 uc002vri.4) ENST00000452881(uc002vrk.2)
ENST00000433428 ENST00000454918 ENST00000455816 ENST00000440792 ENST00000423134
ENST00000409956 ENST00000495639
miRNA
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hsa-miR-4261 hsa-miR-513b hsa-miR-3688-3p hsa-miR-3134 hsa-miR-1243
SwitchGear 3'UTR luciferase reporter plasmidSPATA3 3' UTR sequence
Inhib. RNA
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Selected AceView cDNA sequences (see all 33):

NM_139073 AA725598 AI125254 AA442838 AI218526 CR595989 AA781925 AX748090 
BX090831 AA758847 AI285857 AK093385 BI826810 BX422763 BC036248 AI214386 
BF195627 AI394396 AI671527 AA913354 AA884649 AW274576 AA437008 AA383617 

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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SPATA3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: CTAGCTCCAA
SPATA3 Expression
About this image

SPATA3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

SPATA3 Protein Expression
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SPATA3

(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 mouse.

Orthologs for SPATA3 gene from Selected species (see all 5)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Spata31 , 5 spermatogenesis associated 31, 5 66.14(n)1
57.14(a)1
  1 (43.94 cM)5
700601  NM_027300.31  NP_081576.21 
 860168165 


ENSEMBL Gene Tree for SPATA3 (if available)
TreeFam Gene Tree for SPATA3 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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  --

(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 SPATA3 (see all 305)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 2 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs108043731,2
C,F,A,H--231862785(+) GCCTAC/GGAGTC 1 -- int114Minor allele frequency- N:0.00EA NA WA CSA 561
rs1388305851,2
--231862854(+) CCCACA/GACTCC 1 -- int10--------
rs23685261,2
C,F,A,H--231863095(-) GAAGAT/CCATAA 1 -- int121Minor allele frequency- C:0.32NS EA NA WA CSA 2345
rs1427882181,2
--231863107(+) GAACTA/GGCATC 1 -- int10--------
rs23685251,2
C,F,A--231863109(-) AAGATG/ACCAGT 1 -- int19Minor allele frequency- A:0.33NA WA CSA EA 369
rs1474375451,2
--231863240(+) GGCTCA/GCCAGT 1 -- int10--------
rs1381886481,2
--231863251(+) GGTTAC/GAGCAG 1 -- int10--------
rs1164229091,2
F--231863276(+) TTCCAA/GAGGAA 1 -- int11Minor allele frequency- G:0.01WA 118
rs99738681,2
C,F--231863290(+) TCTGCG/ATAGAA 1 -- int11Minor allele frequency- A:0.03WA 118
rs1418596921,2
--231863309(+) TGGAGA/TTGAAG 1 -- int10--------

HapMap Linkage Disequilibrium report for SPATA3 (231860836 - 231889770 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for SPATA3:    About this table    
Variant IDTypeSubtypePubMed ID
esv2721608CNV Deletion23290073
nsv875956CNV Gain21882294

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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OMIM gene information: 615409    OMIM disorders: --

1 disease from the University of Copenhagen DISEASES database for SPATA3:
Cryptorchidism

Find genes that share disorders with SPATA3           About GenesLikeMe

Genetic Association Database (GAD): SPATA3
Human Genome Epidemiology (HuGE) Navigator: SPATA3 (1 document)

Export disorders for SPATA3 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)
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PubMed articles for SPATA3 gene integrated from 10 sources:
(articles sorted by number of sources associating them with SPATA3)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
  3. Molecular cloning for testis spermatogenesis cell apoptosis related gene TSARG1 and Mtsarg1 and expression analysis for Mtsarg1 gene. (PubMed id 12812072)1, 2 Fu J.J.... Liu S.F. (Yi Chuan Xue Bao 2003)
  4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
  6. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(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: 130560 HGNC: 17884 AceView: SPATA3 Ensembl:ENSG00000173699 euGenes: HUgn130560
ECgene: SPATA3 H-InvDB: SPATA3

(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 SPATA3 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 SPATA3 gene:
Search GeneIP for patents involving SPATA3

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, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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 genOway)
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 antibodies-online kits for SPATA3 (4 products)
 antibodies-online peptides for SPATA3
 antibodies-online proteins for SPATA3 (3 products)
       
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