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Aliases for SP9 Gene

Aliases for SP9 Gene

  • Sp9 Transcription Factor 2 3 5
  • Zinc Finger Protein 990 2 3
  • Sp9 Transcription Factor Homolog (Mouse) 2
  • Sp9 Transcription Factor Homolog 3
  • Transcription Factor Sp9 3
  • ZNF990 3

External Ids for SP9 Gene

Previous GeneCards Identifiers for SP9 Gene

  • GC02P174908
  • GC02P175199
  • GC02P167080

Summaries for SP9 Gene

GeneCards Summary for SP9 Gene

SP9 (Sp9 Transcription Factor) is a Protein Coding gene. An important paralog of this gene is SP8.

UniProtKB/Swiss-Prot for SP9 Gene

  • Transcription factor which plays a key role in limb development. Positively regulates FGF8 expression in the apical ectodermal ridge (AER) and contributes to limb outgrowth in embryos (By similarity).

Additional gene information for SP9 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 SP9 Gene

Genomics for SP9 Gene

GeneHancer (GH) Regulatory Elements for SP9 Gene

Promoters and enhancers for SP9 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
GH02I174334 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 550.8 +1.3 1299 4.2 HDGF PKNOX1 ATF1 ARNT ARID4B SIN3A FEZF1 ZNF48 GLIS2 ZNF202 SP9 LOC102724194 GPR155 SCRN3
GH02I173401 Enhancer 1.1 Ensembl ENCODE 11.9 -932.6 -932607 1.6 ELF3 RB1 ARID4B BMI1 ZNF2 IRF4 ZNF48 RAD21 ZEB1 ARID2 SP9 LOC100289479 CDCA7 LOC100130171
GH02I174246 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 4.7 -86.8 -86823 2.6 SMAD1 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 IRF4 YY1 OLA1 SP3 ENSG00000271151 CIR1 SP9 RN7SL65P
GH02I174263 Enhancer 0.7 ENCODE 11.7 -70.7 -70683 1.7 MEIS2 SOX13 PKNOX1 SAP130 JUN MAX SIN3A CEBPG ZNF644 FOSL1 ENSG00000201088 GC02M174265 SP9 OLA1
GH02I174158 Enhancer 0.5 UCNEbase 11.7 -175.8 -175839 0.3 ZNF316 SP9 OLA1 ENSG00000270799 GC02P174142
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SP9 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SP9 gene promoter:

Genomic Locations for SP9 Gene

Genomic Locations for SP9 Gene
11,060 bases
Plus strand

Genomic View for SP9 Gene

Genes around SP9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SP9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SP9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SP9 Gene

Proteins for SP9 Gene

  • Protein details for SP9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Transcription factor Sp9
    Protein Accession:

    Protein attributes for SP9 Gene

    484 amino acids
    Molecular mass:
    48915 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SP9 Gene

Post-translational modifications for SP9 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SP9 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SP9 Gene

Domains & Families for SP9 Gene

Gene Families for SP9 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for SP9 Gene


Suggested Antigen Peptide Sequences for SP9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the Sp1 C2H2-type zinc-finger protein family.
  • Belongs to the Sp1 C2H2-type zinc-finger protein family.
genes like me logo Genes that share domains with SP9: view

Function for SP9 Gene

Molecular function for SP9 Gene

UniProtKB/Swiss-Prot Function:
Transcription factor which plays a key role in limb development. Positively regulates FGF8 expression in the apical ectodermal ridge (AER) and contributes to limb outgrowth in embryos (By similarity).

Gene Ontology (GO) - Molecular Function for SP9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding IBA --
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with SP9: view

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SP9 Gene

Localization for SP9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SP9 Gene


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 SP9 gene
Compartment Confidence
nucleus 5
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SP9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA --
genes like me logo Genes that share ontologies with SP9: view

Pathways & Interactions for SP9 Gene

No Data Available

Interacting Proteins for SP9 Gene

Gene Ontology (GO) - Biological Process for SP9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription by RNA polymerase II IBA --
GO:0030326 embryonic limb morphogenesis IEA --
genes like me logo Genes that share ontologies with SP9: view

No data available for Pathways by source and SIGNOR curated interactions for SP9 Gene

Drugs & Compounds for SP9 Gene

No Compound Related Data Available

Transcripts for SP9 Gene

mRNA/cDNA for SP9 Gene

(1) REFSEQ mRNAs :
(0) Additional mRNA sequences :
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SP9 Gene

Sp9 transcription factor:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SP9 Gene

No ASD Table

Relevant External Links for SP9 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SP9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SP9 Gene

mRNA differential expression in normal tissues according to GTEx for SP9 Gene

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (x8.8), Brain - Putamen (basal ganglia) (x7.4), Brain - Caudate (basal ganglia) (x7.3), and Brain - Anterior cingulate cortex (BA24) (x5.9).

Protein differential expression in normal tissues from HIPED for SP9 Gene

This gene is overexpressed in Bone (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SP9 Gene

Protein tissue co-expression partners for SP9 Gene

NURSA nuclear receptor signaling pathways regulating expression of SP9 Gene:


SOURCE GeneReport for Unigene cluster for SP9 Gene:

genes like me logo Genes that share expression patterns with SP9: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SP9 Gene

Orthologs for SP9 Gene

This gene was present in the common ancestor of animals.

Orthologs for SP9 Gene

Organism Taxonomy Gene Similarity Type Details
(Monodelphis domestica)
Mammalia SP9 34
  • 96 (a)
(Canis familiaris)
Mammalia SP9 34
  • 95 (a)
(Bos Taurus)
Mammalia SP9 33 34
  • 94.87 (n)
(Mus musculus)
Mammalia Sp9 33 16 34
  • 93.46 (n)
(Rattus norvegicus)
Mammalia Sp9 33
  • 93.04 (n)
(Gallus gallus)
Aves SP9 33
  • 86.43 (n)
(Anolis carolinensis)
Reptilia SP9 34
  • 73 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia sp9 33
  • 77.15 (n)
(Danio rerio)
Actinopterygii sp9 33 34
  • 74.56 (n)
fruit fly
(Drosophila melanogaster)
Insecta Sp1 34
  • 33 (a)
Species where no ortholog for SP9 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)
  • chimpanzee (Pan troglodytes)
  • 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SP9 Gene

Gene Tree for SP9 (if available)
Gene Tree for SP9 (if available)

Paralogs for SP9 Gene

Paralogs for SP9 Gene

genes like me logo Genes that share paralogs with SP9: view

Variants for SP9 Gene

Sequence variations from dbSNP and Humsavar for SP9 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000267959 -- 174,333,694(+) T/C upstream_transcript_variant
rs1000297496 -- 174,337,594(+) G/A downstream_transcript_variant
rs1001373621 -- 174,336,790(+) G/C coding_sequence_variant, synonymous_variant
rs1001770619 -- 174,333,314(+) C/T upstream_transcript_variant
rs1001824534 -- 174,336,356(+) C/T coding_sequence_variant, synonymous_variant

Structural Variations from Database of Genomic Variants (DGV) for SP9 Gene

Variant ID Type Subtype PubMed ID
nsv583666 CNV loss 21841781

Variation tolerance for SP9 Gene

Gene Damage Index Score: 0.86; 18.01% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SP9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SP9 Gene

Disorders for SP9 Gene

No disorders were found for SP9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SP9 Gene

Publications for SP9 Gene

  1. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier LW … Wilson RK (Nature 2005) 3 4 58
  2. A census of human transcription factors: function, expression and evolution. (PMID: 19274049) Vaquerizas JM … Luscombe NM (Nature reviews. Genetics 2009) 3

Products for SP9 Gene

Sources for SP9 Gene

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