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    Fat3 FAT atypical cadherin 3 [ Mus musculus (house mouse) ]

    Gene ID: 270120, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Fat3provided by MGI
    Official Full Name
    FAT atypical cadherin 3provided by MGI
    Primary source
    MGI:MGI:2444314
    See related
    Ensembl:ENSMUSG00000074505 AllianceGenome:MGI:2444314
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Gm510; Gm1132; MFAT3F; 9430076A06Rik; D430038H04Rik
    Summary
    Predicted to enable calcium ion binding activity. Acts upstream of or within generation of neurons; negative regulation of dendrite development; and retina layer formation. Located in dendrite. Is expressed in several structures, including brain; foregut; ganglia; sensory organ; and skeleton. Orthologous to human FAT3 (FAT atypical cadherin 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in whole brain E14.5 (RPKM 3.7), frontal lobe adult (RPKM 3.2) and 12 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Fat3 in Genome Data Viewer
    Location:
    9 A2; 9 5.16 cM
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (15821485..16413981, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (15910189..16502681, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 36 (proton/amino acid symporter), member 4 Neighboring gene STARR-seq mESC enhancer starr_23387 Neighboring gene melatonin receptor 1B Neighboring gene STARR-seq mESC enhancer starr_23388 Neighboring gene STARR-seq mESC enhancer starr_23389 Neighboring gene STARR-seq mESC enhancer starr_23390 Neighboring gene STARR-seq mESC enhancer starr_23391 Neighboring gene STARR-seq mESC enhancer starr_23392 Neighboring gene STARR-seq mESC enhancer starr_23393 Neighboring gene predicted gene, 53499 Neighboring gene STARR-seq mESC enhancer starr_23398 Neighboring gene STARR-seq mESC enhancer starr_23400 Neighboring gene STARR-seq mESC enhancer starr_23401 Neighboring gene STARR-seq mESC enhancer starr_23402 Neighboring gene nucleophosmin 1 pseudogene Neighboring gene predicted gene, 53500

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. A Circular RNA Expressed from the FAT3 Locus Regulates Neural Development. Seeler S, et al. Mol Neurobiol, 2023 Jun. PMID 36840844, Free PMC Article
    2. Defective Angiogenesis and Intraretinal Bleeding in Mouse Models With Disrupted Inner Retinal Lamination. Simmons AB, et al. Invest Ophthalmol Vis Sci, 2016 Apr. PMID 27046121, Free PMC Article
    3. Fat cadherins in mouse models of degenerative ataxias. Baron O, et al. Sci Rep, 2019 Nov 6. PMID 31695130, Free PMC Article
    4. Fat3 and Ena/VASP proteins influence the emergence of asymmetric cell morphology in the developing retina. Krol A, et al. Development, 2016 Jun 15. PMID 27122175, Free PMC Article
    5. Fat3 regulates neural progenitor cells by promoting Yap activity during spinal cord development. Seo S, et al. Sci Rep, 2022 Aug 30. PMID 36042367, Free PMC Article

    See all (33) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A Circular RNA Expressed from the FAT3 Locus Regulates Neural Development.
      Title: A Circular RNA Expressed from the FAT3 Locus Regulates Neural Development.
    2. 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.
    3. Fat cadherins in mouse models of degenerative ataxias.
      Title: Fat cadherins in mouse models of degenerative ataxias.
    4. Fat3 functions cell-autonomously and is able to influence the cytoskeleton directly through its intracellular domain, which can bind and localize Ena/VASP family actin regulators.
      Title: Fat3 and Ena/VASP proteins influence the emergence of asymmetric cell morphology in the developing retina.
    5. Data find that during mouse development, Fat3 and Fat4 synergize to drive vertebral arch fusion at the dorsal midline during caudal vertebra morphogenesis.
      Title: Functional interactions between Fat family cadherins in tissue morphogenesis and planar polarity.
    6. This study demonistrated that fat3 mutation in thr mice caused amacrine cell migration and retina development.
      Title: Control of neuronal morphology by the atypical cadherin Fat3.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (2)  1 citation

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell morphogenesis involved in neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of dendrite development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within interneuron migration IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of dendrite development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within retina layer formation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in dendrite IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protocadherin Fat 3
    Names
    FAT tumor suppressor homolog 3
    protocadherin Fat3

    NCBI Reference Sequences (RefSeq)

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    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.

    mRNA and Protein(s)

    1. NM_001080814.2 → NP_001074283.2  protocadherin Fat 3 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AC154406, AC154741, AC159817, AC161370, AC162903
      Consensus CDS
      CCDS40539.2
      UniProtKB/Swiss-Prot
      Q08ED4, Q8BNA6
      UniProtKB/TrEMBL
      E9QK16
      Related
      ENSMUSP00000080808.6, ENSMUST00000082170.6
      Conserved Domains (4) summary
      cd11304
      Location:1048 → 1143
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:285 → 372
      CA; Cadherin repeats
      cd00054
      Location:4097 → 4132
      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:3864 → 3992
      Laminin_G_2; Laminin G domain

    2. NM_001413471.1 → NP_001400400.1  protocadherin Fat 3 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC154406, AC154741, AC159817, AC161370, AC162903

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      15821485..16413981 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011242542.4 → XP_011240844.1  protocadherin Fat 3 isoform X5

      UniProtKB/TrEMBL
      E9QK16
      Conserved Domains (4) summary
      cd11304
      Location:1049 → 1144
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:286 → 373
      CA; Cadherin repeats
      cd00054
      Location:4121 → 4156
      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:3888 → 4014
      Laminin_G_2; Laminin G domain

    2. XM_011242541.4 → XP_011240843.1  protocadherin Fat 3 isoform X3

      UniProtKB/TrEMBL
      E9QK16
      Conserved Domains (4) summary
      cd11304
      Location:1049 → 1144
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:286 → 373
      CA; Cadherin repeats
      cd00054
      Location:4121 → 4156
      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:3888 → 4014
      Laminin_G_2; Laminin G domain

    3. XM_017313398.3 → XP_017168887.1  protocadherin Fat 3 isoform X2

      UniProtKB/TrEMBL
      E9QK16
      Conserved Domains (4) summary
      cd11304
      Location:1049 → 1144
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:286 → 373
      CA; Cadherin repeats
      cd00054
      Location:4121 → 4156
      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:3888 → 4014
      Laminin_G_2; Laminin G domain

    4. XM_011242543.4 → XP_011240845.1  protocadherin Fat 3 isoform X1

      UniProtKB/TrEMBL
      E9QK16
      Conserved Domains (4) summary
      cd11304
      Location:1049 → 1144
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:286 → 373
      CA; Cadherin repeats
      cd00054
      Location:4121 → 4156
      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:3888 → 4014
      Laminin_G_2; Laminin G domain

    5. XM_030244399.2 → XP_030100259.1  protocadherin Fat 3 isoform X6

      Conserved Domains (3) summary
      cd11304
      Location:2107 → 2203
      Cadherin_repeat; Cadherin tandem repeat domain
      cd00054
      Location:2964 → 2999
      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:2731 → 2857
      Laminin_G_2; Laminin G domain

    6. XM_036155026.1 → XP_036010919.1  protocadherin Fat 3 isoform X7

      Conserved Domains (2) summary
      cd11304
      Location:1049 → 1144
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:286 → 373
      CA; Cadherin repeats

    7. XM_036155027.1 → XP_036010920.1  protocadherin Fat 3 isoform X8

      Conserved Domains (2) summary
      cd11304
      Location:1049 → 1144
      Cadherin_repeat; Cadherin tandem repeat domain
      smart00112
      Location:286 → 373
      CA; Cadherin repeats
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BNA6.2 GenPept UniProtKB/Swiss-Prot:Q8BNA6

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