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

Aliases for SHISA3 Gene

Aliases for SHISA3 Gene

  • Shisa Family Member 3 2 3 5
  • Shisa Homolog 3 (Xenopus Laevis) 2
  • Protein Shisa-3 Homolog 3
  • Shisa Homolog 3 3
  • HShisa3 3

External Ids for SHISA3 Gene

Previous GeneCards Identifiers for SHISA3 Gene

  • GC04P042095
  • GC04P041721

Summaries for SHISA3 Gene

Entrez Gene Summary for SHISA3 Gene

  • This gene encodes a single-transmembrane protein which is one of nine members of a family of transmembrane adaptors that modulate both WNT and FGF signaling by blocking the maturation and transport of their receptors to the cell surface. Members of this family contain an N-terminal cysteine-rich domain with a distinct cysteine pattern, a single transmembrane domain, and a C-terminal proline-rich, low complexity region. The encoded protein acts as a tumor suppressor by accelerating beta-catenin degradation. [provided by RefSeq, Jul 2017]

GeneCards Summary for SHISA3 Gene

SHISA3 (Shisa Family Member 3) is a Protein Coding gene. An important paralog of this gene is SHISA2.

UniProtKB/Swiss-Prot for SHISA3 Gene

  • Plays an essential role in the maturation of presomitic mesoderm cells by individual attenuation of both FGF and WNT signaling.

Additional gene information for SHISA3 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SHISA3 Gene

Genomics for SHISA3 Gene

GeneHancer (GH) Regulatory Elements for SHISA3 Gene

Promoters and enhancers for SHISA3 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
GH04I042397 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE 550.8 -0.3 -338 0.6 MAX SIN3A ZNF2 ZNF335 GLIS2 POLR2A ZNF547 PRDM10 ZBTB20 EZH2 SHISA3 ATP8A1 LOC105374428
GH04I042398 Enhancer 0.4 ENCODE 550.8 +1.4 1441 1 ZNF335 PRDM1 EZH2 SHISA3 RPS7P7
GH04I042425 Enhancer 0.7 UCNEbase ENCODE 12.1 +27.7 27735 0.7 POU5F1 SHISA3 LOC105374428 ATP8A1 RPS7P7
GH04I042638 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 4.6 +244.0 243958 6 HDGF PKNOX1 BMI1 BATF IRF4 ATF7 ETV6 BCLAF1 IKZF2 RUNX3 ATP8A1 SHISA3 GRXCR1 GC04P042610
GH04I042607 Enhancer 0.5 dbSUPER 4.7 +210.2 210196 1.5 MAFF ZNF316 MAFK EMSY WT1 ZBTB12 ATP8A1 SHISA3 GC04P042610 GC04P042579
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SHISA3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SHISA3 gene promoter:

Genomic Locations for SHISA3 Gene

Genomic Locations for SHISA3 Gene
4,649 bases
Plus strand

Genomic View for SHISA3 Gene

Genes around SHISA3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SHISA3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SHISA3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SHISA3 Gene

Proteins for SHISA3 Gene

  • Protein details for SHISA3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein shisa-3 homolog
    Protein Accession:
    Secondary Accessions:
    • A0PJX3
    • Q96EQ5

    Protein attributes for SHISA3 Gene

    238 amino acids
    Molecular mass:
    25832 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SHISA3 Gene

Post-translational modifications for SHISA3 Gene

No Post-translational modifications

Other Protein References for SHISA3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SHISA3 Gene

Domains & Families for SHISA3 Gene

Gene Families for SHISA3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SHISA3 Gene


Suggested Antigen Peptide Sequences for SHISA3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the shisa family.
  • Belongs to the shisa family.
genes like me logo Genes that share domains with SHISA3: view

Function for SHISA3 Gene

Molecular function for SHISA3 Gene

UniProtKB/Swiss-Prot Function:
Plays an essential role in the maturation of presomitic mesoderm cells by individual attenuation of both FGF and WNT signaling.

Gene Ontology (GO) - Molecular Function for SHISA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with SHISA3: view

Phenotypes for SHISA3 Gene

MGI mutant phenotypes for SHISA3:
inferred from 1 alleles
GenomeRNAi human phenotypes for SHISA3:
genes like me logo Genes that share phenotypes with SHISA3: view

Animal Models for SHISA3 Gene

MGI Knock Outs for SHISA3:

Animal Model Products

miRNA for SHISA3 Gene

miRTarBase miRNAs that target SHISA3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SHISA3 Gene

Localization for SHISA3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SHISA3 Gene

Endoplasmic reticulum membrane; Single-pass type I 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 SHISA3 gene
Compartment Confidence
plasma membrane 3
extracellular 3
endoplasmic reticulum 3
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Lipid droplets (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SHISA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SHISA3: view

Pathways & Interactions for SHISA3 Gene

SuperPathways for SHISA3 Gene

No Data Available

Interacting Proteins for SHISA3 Gene

Selected Interacting proteins: A0PJX4-SHSA3_HUMAN for SHISA3 Gene via UniProtKB IID

Symbol External ID(s) Details

Gene Ontology (GO) - Biological Process for SHISA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
genes like me logo Genes that share ontologies with SHISA3: view

No data available for Pathways by source and SIGNOR curated interactions for SHISA3 Gene

Drugs & Compounds for SHISA3 Gene

No Compound Related Data Available

Transcripts for SHISA3 Gene

mRNA/cDNA for SHISA3 Gene

(1) REFSEQ mRNAs :
(3) Additional mRNA sequences :
(30) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SHISA3 Gene

Shisa homolog 3 (Xenopus laevis):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SHISA3 Gene

No ASD Table

Relevant External Links for SHISA3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SHISA3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SHISA3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SHISA3 Gene

This gene is overexpressed in Kidney - Cortex (x5.5), Nerve - Tibial (x4.9), and Heart - Atrial Appendage (x4.3).

NURSA nuclear receptor signaling pathways regulating expression of SHISA3 Gene:


SOURCE GeneReport for Unigene cluster for SHISA3 Gene:

genes like me logo Genes that share expression patterns with SHISA3: view

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for SHISA3 Gene

Orthologs for SHISA3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SHISA3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SHISA3 33 34
  • 99.58 (n)
(Bos Taurus)
Mammalia SHISA3 33 34
  • 91.22 (n)
(Monodelphis domestica)
Mammalia SHISA3 34
  • 91 (a)
(Mus musculus)
Mammalia Shisa3 33 16 34
  • 87.8 (n)
(Rattus norvegicus)
Mammalia Shisa3 33
  • 87.05 (n)
(Canis familiaris)
Mammalia SHISA3 33 34
  • 79.77 (n)
(Gallus gallus)
Aves SHISA3 33 34
  • 73.73 (n)
(Anolis carolinensis)
Reptilia SHISA3 34
  • 60 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia shisa3 33
  • 71.39 (n)
(Danio rerio)
Actinopterygii shisa3 33 34
  • 64.71 (n)
Species where no ortholog for SHISA3 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SHISA3 Gene

Gene Tree for SHISA3 (if available)
Gene Tree for SHISA3 (if available)

Paralogs for SHISA3 Gene

Paralogs for SHISA3 Gene

(1) SIMAP similar genes for SHISA3 Gene using alignment to 1 proteins: Pseudogenes for SHISA3 Gene

genes like me logo Genes that share paralogs with SHISA3: view

Variants for SHISA3 Gene

Sequence variations from dbSNP and Humsavar for SHISA3 Gene

SNP ID Clin Chr 04 pos Variation AA Info Type
rs1000204885 -- 42,399,222(+) A/G intron_variant
rs1001160939 -- 42,396,745(+) C/T upstream_transcript_variant
rs1001445144 -- 42,396,961(+) G/C upstream_transcript_variant
rs1001827016 -- 42,398,683(+) T/A/G intron_variant
rs1003237587 -- 42,397,679(+) C/A upstream_transcript_variant

Variation tolerance for SHISA3 Gene

Residual Variation Intolerance Score: 41.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.36; 81.64% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SHISA3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SHISA3 Gene

Disorders for SHISA3 Gene

Additional Disease Information for SHISA3

No disorders were found for SHISA3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SHISA3 Gene

Publications for SHISA3 Gene

  1. Increased SHISA3 expression characterizes chronic lymphocytic leukemia patients sensitive to lenalidomide. (PMID: 28639485) Maffei R … Marasca R (Leukemia & lymphoma 2018) 3 58
  2. SHISA3 Promoter Methylation Is a Potential Diagnostic and Prognostic Biomarker for Laryngeal Squamous Cell Carcinoma. (PMID: 28299336) Shen Z … Zhang Y (BioMed research international 2017) 3 58
  3. DNA Hypermethylation of SHISA3 in Colorectal Cancer: An Independent Predictor of Poor Prognosis. (PMID: 25968618) Tsai MH … Yang YC (Annals of surgical oncology 2015) 3 58
  4. Shisa3 is associated with prolonged survival through promoting β-catenin degradation in lung cancer. (PMID: 25036006) Chen CC … Yu SL (American journal of respiratory and critical care medicine 2014) 3 58
  5. A proteome-scale map of the human interactome network. (PMID: 25416956) Rolland T … Vidal M (Cell 2014) 3 58

Products for SHISA3 Gene

Sources for SHISA3 Gene

Loading form....