Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SPATA9 Gene

Aliases for SPATA9 Gene

  • Spermatogenesis Associated 9 2 3 5
  • Testis Development Protein NYD-SP16 3 4
  • Spermatogenesis-Associated Protein 9 3
  • Testicular Tissue Protein Li 179 3
  • CTD-2154I11.2 3
  • NYD-SP16 3

External Ids for SPATA9 Gene

Previous GeneCards Identifiers for SPATA9 Gene

  • GC05M095016
  • GC05M095061
  • GC05M095013
  • GC05M090184

Summaries for SPATA9 Gene

GeneCards Summary for SPATA9 Gene

SPATA9 (Spermatogenesis Associated 9) is a Protein Coding gene.

UniProtKB/Swiss-Prot for SPATA9 Gene

  • May play a role in testicular development/spermatogenesis and may be an important factor in male infertility.

Additional gene information for SPATA9 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SPATA9 Gene

Genomics for SPATA9 Gene

GeneHancer (GH) Regulatory Elements for SPATA9 Gene

Promoters and enhancers for SPATA9 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05I095696 Enhancer 1 ENCODE dbSUPER 557.4 +0.1 88 4.2 PKNOX1 NFIB ZNF529 NEUROD1 ZNF335 GATA2 RCOR1 FOS CEBPB GATAD2B SPATA9 RHOBTB3 LOC105379090
GH05I095682 Promoter 0.5 EPDnew 550.4 +15.7 15700 0.1 SPATA9 RHOBTB3 LOC105379090 RFESD
GH05I095645 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 52.4 +50.9 50900 4.9 HDGF FOXA2 PKNOX1 CLOCK SMAD1 MLX ARNT ARID4B SIN3A DMAP1 RFESD SPATA9 RHOBTB3 ENSG00000250240 GPR150 LINC01554 LOC105379090
GH05I095640 Enhancer 1.1 FANTOM5 Ensembl ENCODE 41.8 +57.1 57097 2.3 FOXA2 TAF1 MAX ZNF644 RAD21 YY1 TEAD3 GATA3 RXRA REST SPATA9 GPR150 LINC01554 RHOBTB3 ENSG00000250240 ENSG00000251409 GLRX LOC105379091 RFESD GC05M095620
GH05I095724 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.7 -31.6 -31566 11.6 CLOCK FEZF1 DMAP1 IRF4 YY1 ZNF213 ZNF143 SP3 MEF2D GLIS1 RHOBTB3 TTC37 ARSK SPATA9 GLRX ELL2 ENSG00000250240
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SPATA9 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SPATA9 gene promoter:

Genomic Locations for SPATA9 Gene

Genomic Locations for SPATA9 Gene
46,531 bases
Minus strand

Genomic View for SPATA9 Gene

Genes around SPATA9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPATA9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPATA9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPATA9 Gene

Proteins for SPATA9 Gene

  • Protein details for SPATA9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Spermatogenesis-associated protein 9
    Protein Accession:
    Secondary Accessions:
    • A8K8H3
    • Q4G122
    • Q86X33
    • Q8NA28

    Protein attributes for SPATA9 Gene

    254 amino acids
    Molecular mass:
    28740 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SPATA9 Gene


neXtProt entry for SPATA9 Gene

Post-translational modifications for SPATA9 Gene

No Post-translational modifications

No data available for DME Specific Peptides for SPATA9 Gene

Domains & Families for SPATA9 Gene

Gene Families for SPATA9 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SPATA9 Gene


Suggested Antigen Peptide Sequences for SPATA9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with SPATA9: view

No data available for UniProtKB/Swiss-Prot for SPATA9 Gene

Function for SPATA9 Gene

Molecular function for SPATA9 Gene

UniProtKB/Swiss-Prot Function:
May play a role in testicular development/spermatogenesis and may be an important factor in male infertility.

Phenotypes From GWAS Catalog for SPATA9 Gene

Gene Ontology (GO) - Molecular Function for SPATA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
genes like me logo Genes that share ontologies with SPATA9: view
genes like me logo Genes that share phenotypes with SPATA9: view

miRNA for SPATA9 Gene

miRTarBase miRNAs that target SPATA9

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SPATA9 Gene

Localization for SPATA9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SPATA9 Gene

Membrane; Single-pass membrane protein.

Subcellular locations from

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 SPATA9 gene
Compartment Confidence
mitochondrion 3
cytosol 3
peroxisome 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SPATA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005575 cellular_component ND --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SPATA9: view

Pathways & Interactions for SPATA9 Gene

SuperPathways for SPATA9 Gene

No Data Available

Interacting Proteins for SPATA9 Gene

Gene Ontology (GO) - Biological Process for SPATA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0007283 spermatogenesis IEA --
GO:0008150 biological_process ND --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with SPATA9: view

No data available for Pathways by source and SIGNOR curated interactions for SPATA9 Gene

Drugs & Compounds for SPATA9 Gene

No Compound Related Data Available

Transcripts for SPATA9 Gene

Unigene Clusters for SPATA9 Gene

Spermatogenesis associated 9:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SPATA9 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c
SP2: -
SP3: - -
SP4: - -

Relevant External Links for SPATA9 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SPATA9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SPATA9 Gene

mRNA differential expression in normal tissues according to GTEx for SPATA9 Gene

This gene is overexpressed in Testis (x24.1).

Protein differential expression in normal tissues from HIPED for SPATA9 Gene

This gene is overexpressed in Plasma (68.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SPATA9 Gene

Protein tissue co-expression partners for SPATA9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SPATA9 Gene:


SOURCE GeneReport for Unigene cluster for SPATA9 Gene:


mRNA Expression by UniProt/SwissProt for SPATA9 Gene:

Tissue specificity: Highly expressed in testes and pancreas. Low levels found in the heart, lungs, and brain. Very low expression detected in the placenta. No expression seen in skeletal muscle, liver, kidney, thymus, small intestine, colons, spleen, leukocytes, prostate gland, and ovary. In the adult testes, expression was about 6.44-fold higher than in the embryo testes. No expression in testes of patients with Sertoli-cell-only syndrome. In patients with arrest at spermatogonium and primary spermatocyte stages, no expression was detected. In patients with arrest at the spermatid stage, expression level was weak or absent. Variable expression was seen in patients with spermatogenic arrest.

Evidence on tissue expression from TISSUES for SPATA9 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with SPATA9: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for SPATA9 Gene

Orthologs for SPATA9 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SPATA9 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SPATA9 33 34
  • 99.48 (n)
(Canis familiaris)
Mammalia SPATA9 33 34
  • 90.74 (n)
(Bos Taurus)
Mammalia SPATA9 33 34
  • 89.95 (n)
(Rattus norvegicus)
Mammalia Spata9 33
  • 85.39 (n)
(Mus musculus)
Mammalia Spata9 33 16 34
  • 82.6 (n)
(Monodelphis domestica)
Mammalia SPATA9 34
  • 72 (a)
(Anolis carolinensis)
Reptilia SPATA9 34
  • 39 (a)
Species where no ortholog for SPATA9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • zebrafish (Danio rerio)

Evolution for SPATA9 Gene

Gene Tree for SPATA9 (if available)
Gene Tree for SPATA9 (if available)

Paralogs for SPATA9 Gene

No data available for Paralogs for SPATA9 Gene

Variants for SPATA9 Gene

Sequence variations from dbSNP and Humsavar for SPATA9 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000016142 -- 95,660,764(-) C/G genic_downstream_transcript_variant, intron_variant
rs1000021254 -- 95,696,181(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000098606 -- 95,700,861(-) A/G genic_upstream_transcript_variant, intron_variant
rs1000107543 -- 95,711,652(-) GCG/G genic_upstream_transcript_variant, intron_variant
rs1000131142 -- 95,702,505(-) A/G genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SPATA9 Gene

Variant ID Type Subtype PubMed ID
esv1052640 CNV insertion 17803354
esv2513210 CNV insertion 19546169
esv3303585 CNV mobile element insertion 20981092
esv3309189 CNV mobile element insertion 20981092
esv3349666 CNV insertion 20981092
esv3388266 CNV insertion 20981092
esv3403924 CNV insertion 20981092
nsv507274 OTHER sequence alteration 20534489
nsv598955 CNV gain 21841781
nsv598960 CNV loss 21841781
nsv830409 CNV gain 17160897

Variation tolerance for SPATA9 Gene

Residual Variation Intolerance Score: 41.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.10; 50.97% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SPATA9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SPATA9 Gene

Disorders for SPATA9 Gene

Additional Disease Information for SPATA9

No disorders were found for SPATA9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SPATA9 Gene

Publications for SPATA9 Gene

  1. NYD-SP16, a novel gene associated with spermatogenesis of human testis. (PMID: 12493713) Cheng LJ … Sha JH (Biology of reproduction 2003) 2 3 4 58
  2. Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function. (PMID: 21946350) Soler Artigas M … Tobin MD (Nature genetics 2011) 3 44 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. 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 58
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 58

Products for SPATA9 Gene

Sources for SPATA9 Gene

Loading form....