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Aliases for SALL3 Gene

Aliases for SALL3 Gene

  • Spalt-Like Transcription Factor 3 2 3 5
  • Zinc Finger Protein 796 3 4
  • ZNF796 3 4
  • HSALL3 3 4
  • C2H2 Zinc Finger Protein SALL3 3
  • Spalt-Like Zinc Finger Protein 3
  • Zinc Finger Protein SALL3 4
  • Sal (Drosophila)-Like 3 2
  • Sal-Like 3 (Drosophila) 2

External Ids for SALL3 Gene

Previous GeneCards Identifiers for SALL3 Gene

  • GC18U990052
  • GC18P076766
  • GC18P076475
  • GC18P074839
  • GC18P074841
  • GC18P073383

Summaries for SALL3 Gene

Entrez Gene Summary for SALL3 Gene

  • This gene encodes a sal-like C2H2-type zinc-finger protein, and belongs to a family of evolutionarily conserved genes found in species as diverse as Drosophila, C. elegans, and vertebrates. Mutations in some of these genes are associated with congenital disorders in human, suggesting their importance in embryonic development. This protein binds to DNA methyltransferase 3 alpha (DNMT3A), and reduces DNMT3A-mediated CpG island methylation. It is suggested that silencing of this gene, resulting in acceleration of DNA methylation, may have a role in oncogenesis. [provided by RefSeq, Oct 2011]

GeneCards Summary for SALL3 Gene

SALL3 (Spalt-Like Transcription Factor 3) is a Protein Coding gene. An important paralog of this gene is SALL4.

UniProtKB/Swiss-Prot for SALL3 Gene

  • Probable transcription factor.

Gene Wiki entry for SALL3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SALL3 Gene

Genomics for SALL3 Gene

Regulatory Elements for SALL3 Gene

Enhancers for SALL3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around SALL3 on UCSC Golden Path with GeneCards custom track

Promoters for SALL3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SALL3 on UCSC Golden Path with GeneCards custom track

Genomic Location for SALL3 Gene

78,980,275 bp from pter
79,002,677 bp from pter
22,403 bases
Plus strand

Genomic View for SALL3 Gene

Genes around SALL3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SALL3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SALL3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SALL3 Gene

Proteins for SALL3 Gene

  • Protein details for SALL3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Sal-like protein 3
    Protein Accession:
    Secondary Accessions:
    • Q9UGH1

    Protein attributes for SALL3 Gene

    1300 amino acids
    Molecular mass:
    135346 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SALL3 Gene


neXtProt entry for SALL3 Gene

Proteomics data for SALL3 Gene at MOPED

Post-translational modifications for SALL3 Gene

  • Ubiquitination at Lys 1198
  • Modification sites at PhosphoSitePlus

Other Protein References for SALL3 Gene

No data available for DME Specific Peptides for SALL3 Gene

Domains & Families for SALL3 Gene

Gene Families for SALL3 Gene

Protein Domains for SALL3 Gene

Suggested Antigen Peptide Sequences for SALL3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the sal C2H2-type zinc-finger protein family.
  • Contains 9 C2H2-type zinc fingers.
  • Belongs to the sal C2H2-type zinc-finger protein family.
  • Contains 9 C2H2-type zinc fingers.
genes like me logo Genes that share domains with SALL3: view

Function for SALL3 Gene

Molecular function for SALL3 Gene

GENATLAS Biochemistry:
spalt (sal)-like,Drosophila SAL like gene 3,expressed in fetal brain and in several adult tissues,haploinsufficency in the 18q deletion syndrome and may be contributing to the phenotype
UniProtKB/Swiss-Prot Function:
Probable transcription factor.

Gene Ontology (GO) - Molecular Function for SALL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043565 sequence-specific DNA binding IBA --
GO:0044212 transcription regulatory region DNA binding IBA --
genes like me logo Genes that share ontologies with SALL3: view
genes like me logo Genes that share phenotypes with SALL3: view

Animal Models for SALL3 Gene

MGI Knock Outs for SALL3:

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SALL3 Gene

Localization for SALL3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SALL3 Gene

Subcellular locations from

Jensen Localization Image for SALL3 Gene COMPARTMENTS Subcellular localization image for SALL3 gene
Compartment Confidence
nucleus 3

No data available for Gene Ontology (GO) - Cellular Components for SALL3 Gene

Pathways & Interactions for SALL3 Gene

SuperPathways for SALL3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SALL3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IBA --
GO:0021891 olfactory bulb interneuron development IEA --
GO:0022008 neurogenesis IBA --
GO:0035136 forelimb morphogenesis IEA --
GO:0035137 hindlimb morphogenesis IEA --
genes like me logo Genes that share ontologies with SALL3: view

No data available for Pathways by source and SIGNOR curated interactions for SALL3 Gene

Drugs & Compounds for SALL3 Gene

No Compound Related Data Available

Transcripts for SALL3 Gene

mRNA/cDNA for SALL3 Gene

Unigene Clusters for SALL3 Gene

Sal-like 3 (Drosophila):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SALL3 Gene

No ASD Table

Relevant External Links for SALL3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SALL3 Gene

mRNA expression in normal human tissues for SALL3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SALL3 Gene

This gene is overexpressed in Vagina (x6.1), Brain - Spinal cord (cervical c-1) (x5.5), Brain - Caudate (basal ganglia) (x4.4), Brain - Amygdala (x4.2), and Brain - Nucleus accumbens (basal ganglia) (x4.1).

Protein differential expression in normal tissues from HIPED for SALL3 Gene

This gene is overexpressed in Saliva (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SALL3 Gene

SOURCE GeneReport for Unigene cluster for SALL3 Gene Hs.700557

mRNA Expression by UniProt/SwissProt for SALL3 Gene

Tissue specificity: Widely expressed in adult with highest levels in heart. Expressed in fetal brain (in neurons of hippocampus, cortex, mediodorsal and ventrolateral thalamic nuclei, putamen, cerebellum and brainstem).
genes like me logo Genes that share expression patterns with SALL3: view

Protein tissue co-expression partners for SALL3 Gene

Primer Products

Orthologs for SALL3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SALL3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia SALL3 35
  • 83.16 (n)
  • 83.55 (a)
(Mus musculus)
Mammalia Sall3 35
  • 79 (n)
  • 81.86 (a)
Sall3 16
Sall3 36
  • 82 (a)
(Pan troglodytes)
Mammalia SALL3 35
  • 98.4 (n)
  • 98.61 (a)
SALL3 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Sall3 35
  • 80.99 (n)
  • 85.5 (a)
(Canis familiaris)
Mammalia SALL3 36
  • 81 (a)
(Monodelphis domestica)
Mammalia SALL3 36
  • 77 (a)
(Ornithorhynchus anatinus)
Mammalia SALL3 36
  • 85 (a)
(Gallus gallus)
Aves SALL3 35
  • 71.51 (n)
  • 77.61 (a)
SALL3 36
  • 75 (a)
(Anolis carolinensis)
Reptilia SALL3 36
  • 74 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia sall3 35
  • 65.82 (n)
  • 73.52 (a)
African clawed frog
(Xenopus laevis)
Amphibia sal1-A 35
(Danio rerio)
Actinopterygii LOC560775 35
  • 65.3 (n)
  • 69.01 (a)
sall3a 36
  • 56 (a)
sall3b 36
  • 53 (a)
fruit fly
(Drosophila melanogaster)
Insecta salm 36
  • 26 (a)
salr 36
  • 27 (a)
(Caenorhabditis elegans)
Secernentea sem-4 36
  • 30 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes FZF1 36
  • 27 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 29 (a)
-- 36
  • 25 (a)
Species with no ortholog for SALL3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)

Evolution for SALL3 Gene

Gene Tree for SALL3 (if available)
Gene Tree for SALL3 (if available)

Paralogs for SALL3 Gene

Paralogs for SALL3 Gene Pseudogenes for SALL3 Gene

genes like me logo Genes that share paralogs with SALL3: view

Variants for SALL3 Gene

Sequence variations from dbSNP and Humsavar for SALL3 Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type
VAR_014132 -
VAR_035552 A colorectal cancer sample
VAR_059887 -
rs1789251 -- 78,998,016(-) aaaaa(A/G)GGCTT utr-variant-3-prime
rs5826619 -- 78,995,702(+) GGGTC(-/GT)GTGTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SALL3 Gene

Variant ID Type Subtype PubMed ID
esv2717497 CNV Deletion 23290073
dgv3478n71 CNV Loss 21882294
dgv3479n71 CNV Loss 21882294
nsv458313 CNV Loss 19166990
dgv564n67 CNV Gain 20364138
nsv828333 CNV Loss 20364138
dgv3480n71 CNV Loss 21882294
nsv828338 CNV Gain 20364138
dgv565n67 CNV Gain 20364138
nsv828342 CNV Gain 20364138
esv2666555 CNV Deletion 23128226
esv29012 CNV Loss 19812545
nsv2377 CNV Insertion 18451855

Variation tolerance for SALL3 Gene

Residual Variation Intolerance Score: 37.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.15; 69.47% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for SALL3 Gene

Disorders for SALL3 Gene

Relevant External Links for SALL3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for SALL3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SALL3 Gene

Publications for SALL3 Gene

  1. SALL3, a new member of the human spalt-like gene family, maps to 18q23. (PMID: 10610715) Kohlhase J. … Engel W. (Genomics 1999) 2 3 4 67
  2. Identification of 23 new prostate cancer susceptibility loci using the iCOGS custom genotyping array. (PMID: 23535732) Eeles R.A. … Easton D.F. (Nat. Genet. 2013) 3
  3. Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women. (PMID: 22589738) Fox C.S. … Borecki I.B. (PLoS Genet. 2012) 3
  4. Aberrant methylation and downregulation of sall3 in human hepatocellular carcinoma. (PMID: 22690083) Yang X.X. … Li M. (World J. Gastroenterol. 2012) 3
  5. Sox2 cooperates with Chd7 to regulate genes that are mutated in human syndromes. (PMID: 21532573) Engelen E. … Poot R.A. (Nat. Genet. 2011) 3

Products for SALL3 Gene

Sources for SALL3 Gene