Aliases for FAT3 Gene

Aliases for FAT3 Gene

  • FAT Atypical Cadherin 3 2 3 5
  • CDHF15 2 3 4
  • Cadherin-Related Family Member 10 2 3
  • FAT Tumor Suppressor Homolog 3 3 4
  • Cadherin Family Member 15 3 4
  • Protocadherin Fat 3 3 4
  • KIAA1989 2 4
  • CDHR10 2 3
  • HFat3 3 4
  • FAT Tumor Suppressor Homolog 3 (Drosophila) 2
  • FAT3 5

External Ids for FAT3 Gene

Previous GeneCards Identifiers for FAT3 Gene

  • GC11P094904
  • GC11P094081
  • GC11P092758
  • GC11P092048
  • GC11P091942
  • GC11P092164
  • GC11P091723
  • GC11P088175
  • GC11P092314

Summaries for FAT3 Gene

GeneCards Summary for FAT3 Gene

FAT3 (FAT Atypical Cadherin 3) is a Protein Coding gene. Diseases associated with FAT3 include Spinocerebellar Ataxia 45 and Van Maldergem Syndrome. Gene Ontology (GO) annotations related to this gene include calcium ion binding. An important paralog of this gene is FAT1.

UniProtKB/Swiss-Prot Summary for FAT3 Gene

  • May play a role in the interactions between neurites derived from specific subsets of neurons during development.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for FAT3 Gene

Genomics for FAT3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for FAT3 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
GH11J092225 Promoter/Enhancer 1.4 FANTOM5 ENCODE CraniofacialAtlas 608 +1.2 1218 3.7 PRDM10 ZNF629 ZNF692 PRDM1 ZIC2 POLR2A PATZ1 EZH2 ZNF600 ZNF341 FAT3 HSALNG0086425 piR-38352-088 MTNR1B
GH11J092376 Enhancer 0.8 Ensembl ENCODE 12 +151.7 151675 1.4 PRDM10 ZNF629 ZIC2 ZNF600 ZXDB TSHZ1 OSR2 MAFF FOS MAFK FAT3 PGAM1P9 ENSG00000254705 MTNR1B
GH11J092130 Enhancer 0.7 Ensembl ENCODE 10.6 -93.7 -93661 2.3 CEBPB SP1 MAFF MAFK FOSL2 JUND ATF2 FAT3 LOC105369429 HSALNG0086420
GH11J092266 Enhancer 1 FANTOM5 Ensembl ENCODE 5.2 +43.8 43763 4 TEAD4 KDM1A FOXA1 SP1 JUND YY1 NR2F2 FOSL2 GATA3 RAD21 FAT3 piR-50437-094 HSALNG0086426 MTNR1B
GH11J091947 Enhancer 0.7 Ensembl 5.1 -277.2 -277236 2 JUND PRDM1 PKNOX1 ZNF561 ZBTB44 OSR2 FOSL1 WT1 POLR2A PRDM4 FAT3 TUBB4BP4 lnc-SLC36A4-9 piR-53229
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around FAT3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for FAT3

Top Transcription factor binding sites by QIAGEN in the FAT3 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • Gfi-1
  • Nkx2-5
  • RP58
  • S8

Genomic Locations for FAT3 Gene

Genomic Locations for FAT3 Gene
671,838 bases
Plus strand
544,375 bases
Plus strand

Genomic View for FAT3 Gene

Genes around FAT3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FAT3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FAT3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for FAT3 Gene

Proteins for FAT3 Gene

  • Protein details for FAT3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protocadherin Fat 3
    Protein Accession:
    Secondary Accessions:
    • B5MDB0
    • Q96AU6

    Protein attributes for FAT3 Gene

    4557 amino acids
    Molecular mass:
    501978 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAH16722.1; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for FAT3 Gene


neXtProt entry for FAT3 Gene

Post-translational modifications for FAT3 Gene

  • Glycosylation at Asn49, Asn342, Asn482, Asn563, Asn668, Asn800, Asn880, Asn899, Asn1007, Asn1368, Asn1430, Asn1752, Asn1945, Asn1994, Asn1997, Asn2209, Asn2293, Asn2332, Asn2468, Asn3001, Asn3202, Asn3330, Asn3450, Asn3619, Asn3742, and Asn3927
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for FAT3 Gene

Domains & Families for FAT3 Gene

Gene Families for FAT3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for FAT3 Gene

  • Aspartic acid and asparagine hydroxylation site
  • EGF-like calcium-binding
  • Laminin G

Suggested Antigen Peptide Sequences for FAT3 Gene

GenScript: Design optimal peptide antigens:
  • FAT tumor suppressor homolog 3 (FAT3_HUMAN)
  • Prostate cancer FAT3 (Q6S4P6_HUMAN)
genes like me logo Genes that share domains with FAT3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for FAT3 Gene

Function for FAT3 Gene

Molecular function for FAT3 Gene

UniProtKB/Swiss-Prot Function:
May play a role in the interactions between neurites derived from specific subsets of neurons during development.

Phenotypes From GWAS Catalog for FAT3 Gene

Gene Ontology (GO) - Molecular Function for FAT3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with FAT3: view
genes like me logo Genes that share phenotypes with FAT3: view

Animal Models for FAT3 Gene

MGI Knock Outs for FAT3:
  • Fat3 Fat3<tm1.2Good>

Animal Model Products

  • Taconic Biosciences Mouse Models for FAT3

CRISPR Products

miRNA for FAT3 Gene

miRTarBase miRNAs that target FAT3

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for FAT3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for FAT3 Gene

Localization for FAT3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for FAT3 Gene

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 FAT3 gene
Compartment Confidence
plasma membrane 4
nucleus 3
extracellular 2
cytoskeleton 2
cytosol 2
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for FAT3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with FAT3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for FAT3 Gene

Pathways & Interactions for FAT3 Gene

PathCards logo

SuperPathways for FAT3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for FAT3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IEA --
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007275 multicellular organism development IEA --
GO:0098609 cell-cell adhesion IBA 21873635
genes like me logo Genes that share ontologies with FAT3: view

No data available for Pathways by source and SIGNOR curated interactions for FAT3 Gene

Drugs & Compounds for FAT3 Gene

No Compound Related Data Available

Transcripts for FAT3 Gene

mRNA/cDNA for FAT3 Gene

7 NCBI additional mRNA sequence :
6 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for FAT3

Alternative Splicing Database (ASD) splice patterns (SP) for FAT3 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11
SP1: - - -

Relevant External Links for FAT3 Gene

GeneLoc Exon Structure for

Expression for FAT3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for FAT3 Gene

mRNA differential expression in normal tissues according to GTEx for FAT3 Gene

This gene is overexpressed in Brain - Nucleus accumbens (basal ganglia) (x7.4), Brain - Caudate (basal ganglia) (x5.2), and Brain - Putamen (basal ganglia) (x4.5).

Protein differential expression in normal tissues from HIPED for FAT3 Gene

This gene is overexpressed in Plasma (55.7) and Fetal Brain (6.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for FAT3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for FAT3

SOURCE GeneReport for Unigene cluster for FAT3 Gene:


mRNA Expression by UniProt/SwissProt for FAT3 Gene:

Tissue specificity: Expressed in ES cells, primitive neuroectoderm, fetal brain, infant brain, adult neural tissues and prostate.

Evidence on tissue expression from TISSUES for FAT3 Gene

  • Nervous system(4.7)
  • Kidney(2.2)
  • Intestine(2.1)
  • Skin(2.1)
genes like me logo Genes that share expression patterns with FAT3: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for FAT3 Gene

Orthologs for FAT3 Gene

This gene was present in the common ancestor of animals.

Orthologs for FAT3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia FAT3 30 31
  • 99.55 (n)
(Canis familiaris)
Mammalia FAT3 30 31
  • 91.29 (n)
(Monodelphis domestica)
Mammalia FAT3 31
  • 91 (a)
(Bos Taurus)
Mammalia FAT3 30 31
  • 88.82 (n)
(Rattus norvegicus)
Mammalia Fat3 30
  • 87.11 (n)
(Mus musculus)
Mammalia Fat3 30 17 31
  • 87.09 (n)
(Ornithorhynchus anatinus)
Mammalia FAT3 31
  • 46 (a)
(Gallus gallus)
Aves FAT3 30 31
  • 78.47 (n)
(Anolis carolinensis)
Reptilia FAT3 31
  • 45 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia fat3 30
  • 72.66 (n)
Str.5146 30
(Danio rerio)
Actinopterygii fat3a 31
  • 63 (a)
LOC568600 30
  • 61.94 (n)
Fruit Fly
(Drosophila melanogaster)
Insecta kug 31
  • 36 (a)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 30 (a)
Species where no ortholog for FAT3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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 Vase (Ciona intestinalis)
  • 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 FAT3 Gene

Gene Tree for FAT3 (if available)
Gene Tree for FAT3 (if available)
Evolutionary constrained regions (ECRs) for FAT3: view image

Paralogs for FAT3 Gene

Paralogs for FAT3 Gene

genes like me logo Genes that share paralogs with FAT3: view

Variants for FAT3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for FAT3 Gene

SNP ID Clinical significance and condition Chr 11 pos Variation AA Info Type
710967 Likely Benign: not provided 92,354,146(+) A/G SYNONYMOUS_VARIANT
710968 Benign: not provided 92,844,493(+) G/T MISSENSE_VARIANT
712972 Benign: not provided 92,790,205(+) T/C MISSENSE_VARIANT
714049 Benign: not provided 92,859,187(+) T/A SYNONYMOUS_VARIANT
714050 Benign: not provided 92,882,855(+) C/T SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for FAT3 Gene

Structural Variations from Database of Genomic Variants (DGV) for FAT3 Gene

Variant ID Type Subtype PubMed ID
dgv408e212 CNV loss 25503493
dgv691n106 CNV deletion 24896259
esv1007859 CNV insertion 20482838
esv1024754 CNV insertion 17803354
esv1073574 CNV insertion 17803354
esv1228564 CNV insertion 17803354
esv1282231 CNV insertion 17803354
esv1420122 CNV insertion 17803354
esv2148422 CNV deletion 18987734
esv2493372 CNV deletion 19546169
esv2500510 CNV deletion 19546169
esv2663237 CNV deletion 23128226
esv2667352 CNV deletion 23128226
esv2668744 CNV deletion 23128226
esv2744908 CNV deletion 23290073
esv2744909 CNV deletion 23290073
esv2744910 CNV deletion 23290073
esv3304726 CNV mobile element insertion 20981092
esv3308636 CNV mobile element insertion 20981092
esv3346481 CNV duplication 20981092
esv3360482 CNV insertion 20981092
esv3548151 CNV deletion 23714750
esv3548152 CNV deletion 23714750
esv3579850 CNV loss 25503493
esv3580015 CNV gain 25503493
esv3627273 CNV loss 21293372
esv3627275 CNV loss 21293372
esv3627277 CNV loss 21293372
esv3627278 CNV loss 21293372
esv3627279 CNV loss 21293372
esv3892066 CNV loss 25118596
esv5400 OTHER complex 18987735
esv6436 CNV loss 19470904
esv7974 CNV loss 19470904
nsv1042423 CNV gain 25217958
nsv1070478 CNV deletion 25765185
nsv1112494 CNV deletion 24896259
nsv38845 CNV deletion 16902084
nsv432 CNV insertion 18451855
nsv475012 CNV novel sequence insertion 20440878
nsv475441 CNV novel sequence insertion 20440878
nsv480389 CNV novel sequence insertion 20440878
nsv480869 CNV novel sequence insertion 20440878
nsv480908 CNV novel sequence insertion 20440878
nsv509437 CNV insertion 20534489
nsv521791 CNV loss 19592680
nsv832230 CNV gain 17160897
nsv832231 CNV gain 17160897
nsv957181 CNV deletion 24416366
nsv972061 CNV duplication 23825009
nsv975219 CNV duplication 23825009

Variation tolerance for FAT3 Gene

Gene Damage Index Score: 8.40; 85.53% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for FAT3 Gene

Human Gene Mutation Database (HGMD)
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 FAT3 Gene

Disorders for FAT3 Gene

MalaCards: The human disease database

(3) MalaCards diseases for FAT3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
spinocerebellar ataxia 45
  • sca45
van maldergem syndrome
  • cerebrofacioarticular syndrome
hirschsprung disease 1
  • hirschsprung disease, susceptibility to, 1
- elite association - COSMIC cancer census association via MalaCards
Search FAT3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for FAT3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with FAT3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for FAT3 Gene

Publications for FAT3 Gene

  1. Mammalian fat3: a large protein that contains multiple cadherin and EGF-like motifs. (PMID: 11811999) Mitsui K … Nakayama M (Biochemical and biophysical research communications 2002) 2 3 4
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3
  4. Disparate Regulatory Mechanisms Control Fat3 and P75NTR Protein Transport through a Conserved Kif5-Interaction Domain. (PMID: 27788242) Cheng H … Deans MR (PloS one 2016) 3
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3

Products for FAT3 Gene

Sources for FAT3 Gene