U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

FAT3 FAT atypical cadherin 3 [ Homo sapiens (human) ]

Gene ID: 120114, updated on 11-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
FAT3provided by HGNC
Official Full Name
FAT atypical cadherin 3provided by HGNC
Primary source
HGNC:HGNC:23112
See related
Ensembl:ENSG00000165323 MIM:612483; AllianceGenome:HGNC:23112
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
hFat3; CDHF15; CDHR10
Summary
Predicted to enable calcium ion binding activity. Predicted to be involved in cell-cell adhesion. Predicted to act upstream of or within several processes, including negative regulation of dendrite development; neuron migration; and retina layer formation. Predicted to be located in dendrite and plasma membrane. Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in brain (RPKM 1.5), prostate (RPKM 0.4) and 7 other tissues See more
Orthologs
mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
11q14.3
Exon count:
34
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (92224818..92896473)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (92147480..92825282)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (91957984..92629639)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369429 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:91891363-91892076 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:91902042-91903241 Neighboring gene ribosomal protein L7a pseudogene 57 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:91959543-91960400 Neighboring gene NADH:ubiquinone oxidoreductase subunit B11 pseudogene 1 Neighboring gene phosphoglycerate mutase 1 pseudogene 9 Neighboring gene MPRA-validated peak1397 silencer Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:92243624-92244124 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr11:92244125-92244625 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:92257655-92258190 Neighboring gene RPS3A pseudogene 42 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:92283332-92283906 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:92283907-92284481 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:92360199-92361398 Neighboring gene uncharacterized LOC124902732 Neighboring gene NANOG hESC enhancer GRCh37_chr11:92400564-92401136 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:92405093-92405303 Neighboring gene uncharacterized LOC124902841 Neighboring gene Sharpr-MPRA regulatory region 7264 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:92526255-92526870 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:92553932-92554527 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:92571950-92572450 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:92586970-92587470 Neighboring gene Sharpr-MPRA regulatory region 9498 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:92621650-92622849 Neighboring gene long intergenic non-protein coding RNA 2746 Neighboring gene eukaryotic translation elongation factor 1 alpha 1 pseudogene 49 Neighboring gene small nuclear ribonucleoprotein polypeptide G pseudogene 16

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Identification of FAT3 as a new candidate gene for adolescent idiopathic scoliosis. Nada D, et al. Sci Rep, 2022 Jul 19. PMID 35853984, Free PMC Article
  2. Co-Mutation of FAT3 and LRP1B in Lung Adenocarcinoma Defines a Unique Subset Correlated With the Efficacy of Immunotherapy. Zhu M, et al. Front Immunol, 2021. PMID 35069585, Free PMC Article
  3. A circular RNA derived from FAT atypical cadherin 3 promotes lung cancer progression via forming a regulatory loop with oncogenic ELAV like RNA binding protein 1. Jiang H, et al. J Biochem, 2022 May 11. PMID 34647573
  4. Mammalian fat3: a large protein that contains multiple cadherin and EGF-like motifs. Mitsui K, et al. Biochem Biophys Res Commun, 2002 Feb 1. PMID 11811999
  5. Disparate Regulatory Mechanisms Control Fat3 and P75NTR Protein Transport through a Conserved Kif5-Interaction Domain. Cheng H, et al. PLoS One, 2016. PMID 27788242, Free PMC Article

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Identification of FAT3 as a new candidate gene for adolescent idiopathic scoliosis.
    Title: Identification of FAT3 as a new candidate gene for adolescent idiopathic scoliosis.
  2. A circular RNA derived from FAT atypical cadherin 3 promotes lung cancer progression via forming a regulatory loop with oncogenic ELAV like RNA binding protein 1.
    Title: A circular RNA derived from FAT atypical cadherin 3 promotes lung cancer progression via forming a regulatory loop with oncogenic ELAV like RNA binding protein 1.
  3. Fat3 acts through independent cytoskeletal effectors to coordinate asymmetric cell behaviors during polarized circuit assembly.
    Title: Fat3 acts through independent cytoskeletal effectors to coordinate asymmetric cell behaviors during polarized circuit assembly.
  4. Co-Mutation of FAT3 and LRP1B in Lung Adenocarcinoma Defines a Unique Subset Correlated With the Efficacy of Immunotherapy.
    Title: Co-Mutation of FAT3 and LRP1B in Lung Adenocarcinoma Defines a Unique Subset Correlated With the Efficacy of Immunotherapy.
  5. For Fat3, the Kif5-ID is regulated by alternative splicing, and the timecourse of splicing suggests that the distribution of Fat3 may switch between early and later stages of retinal development. In contrast, P75NTR binding to Kif5B is enhanced by tyrosine phosphorylation and thus has the potential to be dynamically regulated on a more rapid time scale
    Title: Disparate Regulatory Mechanisms Control Fat3 and P75NTR Protein Transport through a Conserved Kif5-Interaction Domain.
  6. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Submit: New GeneRIF Correction

Phenotypes

Go to the top of the page Help

Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study combining pathway analysis for typical sporadic amyotrophic lateral sclerosis in Chinese Han populations.
EBI GWAS Catalog
Genome-wide contribution of genotype by environment interaction to variation of diabetes-related traits.
EBI GWAS Catalog

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • FLJ30341, KIAA1989

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell morphogenesis involved in neuron differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in cell-cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in dendrite development IEA
Inferred from Electronic Annotation
more info
  
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
Inferred from Electronic Annotation
more info
  
involved_in interneuron migration IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of dendrite development IEA
Inferred from Electronic Annotation
more info
  
involved_in retina layer formation IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in dendrite IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
protocadherin Fat 3
Names
FAT tumor suppressor homolog 3
cadherin family member 15
cadherin-related family member 10

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_052813.1 RefSeqGene

    Range
    5183..676838
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001008781.3 → NP_001008781.2  protocadherin Fat 3 isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    AP000722, AP000805, AP002514, AP003124, AP003171, AP003718
    UniProtKB/Swiss-Prot
    B5MDB0, Q8TDW7, Q96AU6
    UniProtKB/TrEMBL
    E9PQ73
    Related
    ENSP00000387040.2, ENST00000409404.6
    Conserved Domains (4) summary
    cd11304
    Location:3241 → 3337
    Cadherin_repeat; Cadherin tandem repeat domain
    cd00054
    Location:4023 → 4058
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    pfam02210
    Location:3865 → 3994
    Laminin_G_2; Laminin G domain
    cl29226
    Location:286 → 357
    Cadherin; Cadherin domain

  2. NM_001367949.2 → NP_001354878.1  protocadherin Fat 3 isoform 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AP000722, AP000805, AP002514, AP003124, AP003171, AP003718
    Consensus CDS
    CCDS91573.1
    UniProtKB/TrEMBL
    E9PQ73
    Related
    ENSP00000432586.2, ENST00000525166.6

  3. NM_001378141.1 → NP_001365070.1  protocadherin Fat 3 isoform 3 precursor

    Status: VALIDATED

    Source sequence(s)
    AP000722, AP000805, AP002514, AP003124
    Conserved Domains (2) summary
    cd11304
    Location:1049 → 1144
    Cadherin_repeat; Cadherin tandem repeat domain
    cl29226
    Location:286 → 357
    Cadherin; Cadherin domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    92224818..92896473
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017017179.3 → XP_016872668.1  protocadherin Fat 3 isoform X1

    UniProtKB/TrEMBL
    E9PQ73

  2. XM_017017178.3 → XP_016872667.1  protocadherin Fat 3 isoform X1

    UniProtKB/TrEMBL
    E9PQ73

  3. XM_017017180.2 → XP_016872669.1  protocadherin Fat 3 isoform X2

    UniProtKB/TrEMBL
    E9PQ73

  4. XM_017017182.3 → XP_016872671.1  protocadherin Fat 3 isoform X3

    UniProtKB/TrEMBL
    E9PQ73

  5. XM_017017186.2 → XP_016872675.1  protocadherin Fat 3 isoform X6

  6. XM_017017184.3 → XP_016872673.1  protocadherin Fat 3 isoform X4

    UniProtKB/TrEMBL
    E9PQ73

  7. XM_047426353.1 → XP_047282309.1  protocadherin Fat 3 isoform X1

  8. XM_017017187.2 → XP_016872676.1  protocadherin Fat 3 isoform X6

  9. XM_017017185.2 → XP_016872674.1  protocadherin Fat 3 isoform X5

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_013171808.1 Reference GRCh38.p14 PATCHES

    Range
    123862..157427
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    92147480..92825282
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054367643.1 → XP_054223618.1  protocadherin Fat 3 isoform X6

  2. XM_054367641.1 → XP_054223616.1  protocadherin Fat 3 isoform X7

  3. XM_054367644.1 → XP_054223619.1  protocadherin Fat 3 isoform X6

  4. XM_054367642.1 → XP_054223617.1  protocadherin Fat 3 isoform X5

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8TDW7.3 GenPept UniProtKB/Swiss-Prot:Q8TDW7

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous