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

Gene ID: 120114, updated on 10-Dec-2024

Summary

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 generation of neurons; negative regulation of dendrite development; and retina layer formation. Predicted to be located in dendrite and plasma membrane. [provided by Alliance of Genome Resources, Dec 2024]
Expression
Biased expression in brain (RPKM 1.5), prostate (RPKM 0.4) and 7 other tissues See more
Orthologs
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Genomic context

See FAT3 in Genome Data Viewer
Location:
11q14.3
Exon count:
34
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (92224818..92896473)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (92147480..92825282)
RS_2024_09 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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

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

Interactions

General gene information

Clone Names

  • FLJ30341, KIAA1989

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables calcium ion binding  
Component Evidence Code Pubs
located_in dendrite  
located_in plasma membrane  

General protein information

Preferred Names
protocadherin Fat 3
Names
FAT tumor suppressor homolog 3
cadherin family member 15
cadherin-related family member 10

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.

Genomic

  1. NG_052813.1 RefSeqGene

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

mRNA and Protein(s)

  1. NM_001008781.3NP_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:32413337
    Cadherin_repeat; Cadherin tandem repeat domain
    cd00054
    Location:40234058
    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:38653994
    Laminin_G_2; Laminin G domain
    cl29226
    Location:286357
    Cadherin; Cadherin domain
  2. NM_001367949.2NP_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_001378141.1NP_001365070.1  protocadherin Fat 3 isoform 3 precursor

    Status: VALIDATED

    Source sequence(s)
    AP000722, AP000805, AP002514, AP003124
    Conserved Domains (2) summary
    cd11304
    Location:10491144
    Cadherin_repeat; Cadherin tandem repeat domain
    cl29226
    Location:286357
    Cadherin; Cadherin domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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_017017179.3XP_016872668.1  protocadherin Fat 3 isoform X1

    UniProtKB/TrEMBL
    E9PQ73
  2. XM_017017178.3XP_016872667.1  protocadherin Fat 3 isoform X1

    UniProtKB/TrEMBL
    E9PQ73
  3. XM_017017180.2XP_016872669.1  protocadherin Fat 3 isoform X2

    UniProtKB/TrEMBL
    E9PQ73
  4. XM_017017182.3XP_016872671.1  protocadherin Fat 3 isoform X3

    UniProtKB/TrEMBL
    E9PQ73
  5. XM_017017186.2XP_016872675.1  protocadherin Fat 3 isoform X6

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

    UniProtKB/TrEMBL
    E9PQ73
  7. XM_047426353.1XP_047282309.1  protocadherin Fat 3 isoform X1

    UniProtKB/TrEMBL
    E9PQ73
  8. XM_017017187.2XP_016872676.1  protocadherin Fat 3 isoform X6

  9. XM_017017185.2XP_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_054367643.1XP_054223618.1  protocadherin Fat 3 isoform X6

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

    UniProtKB/TrEMBL
    E9PQ73
  3. XM_054367644.1XP_054223619.1  protocadherin Fat 3 isoform X6

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

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