Human Gene FAT3 (ENST00000409404.6) from GENCODE V44
  Description: Homo sapiens FAT atypical cadherin 3 (FAT3), transcript variant 2, mRNA. (from RefSeq NM_001008781)
Gencode Transcript: ENST00000409404.6
Gencode Gene: ENSG00000165323.16
Transcript (Including UTRs)
   Position: hg38 chr11:92,352,096-92,896,452 Size: 544,357 Total Exon Count: 25 Strand: +
Coding Region
   Position: hg38 chr11:92,352,113-92,891,113 Size: 539,001 Coding Exon Count: 25 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:92,352,096-92,896,452)mRNA (may differ from genome)Protein (4557 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: FAT3_HUMAN
DESCRIPTION: RecName: Full=Protocadherin Fat 3; Short=hFat3; AltName: Full=Cadherin family member 15; AltName: Full=FAT tumor suppressor homolog 3; Flags: Precursor;
FUNCTION: May play a role in the interactions between neurites derived from specific subsets of neurons during development (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type I membrane protein (Potential).
TISSUE SPECIFICITY: Expressed in ES cells, primitive neuroectoderm, fetal brain, infant brain, adult neural tissues and prostate.
SIMILARITY: Contains 33 cadherin domains.
SIMILARITY: Contains 4 EGF-like domains.
SIMILARITY: Contains 1 laminin G-like domain.
SEQUENCE CAUTION: Sequence=AAH16722.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 4.57 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 31.69 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR 0.00170.000 Picture PostScript Text
3' UTR -1378.305339-0.258 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR002126 - Cadherin
IPR015919 - Cadherin-like
IPR020894 - Cadherin_CS
IPR008985 - ConA-like_lec_gl_sf
IPR013320 - ConA-like_subgrp
IPR000742 - EG-like_dom
IPR001881 - EGF-like_Ca-bd
IPR013032 - EGF-like_CS
IPR000152 - EGF-type_Asp/Asn_hydroxyl_site
IPR018097 - EGF_Ca-bd_CS
IPR001791 - Laminin_G

Pfam Domains:
PF00028 - Cadherin domain
PF07645 - Calcium-binding EGF domain
PF02210 - Laminin G domain

ModBase Predicted Comparative 3D Structure on Q8TDW7
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding

Biological Process:
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0007275 multicellular organism development

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC016722 - Homo sapiens FAT tumor suppressor homolog 3 (Drosophila), mRNA (cDNA clone IMAGE:4075924), partial cds.
AK054903 - Homo sapiens cDNA FLJ30341 fis, clone BRACE2007447, moderately similar to Mus musculus partial mRNA for mouse fat 1 cadherin.
JD057677 - Sequence 38701 from Patent EP1572962.
JD189718 - Sequence 170742 from Patent EP1572962.
JD169008 - Sequence 150032 from Patent EP1572962.
JD563117 - Sequence 544141 from Patent EP1572962.
JD093190 - Sequence 74214 from Patent EP1572962.
JD545678 - Sequence 526702 from Patent EP1572962.
JD048458 - Sequence 29482 from Patent EP1572962.
JD247507 - Sequence 228531 from Patent EP1572962.
JD204883 - Sequence 185907 from Patent EP1572962.
JD103245 - Sequence 84269 from Patent EP1572962.
AB076400 - Homo sapiens mRNA for fat3, partial cds.
JD560004 - Sequence 541028 from Patent EP1572962.
JD467405 - Sequence 448429 from Patent EP1572962.
JD361018 - Sequence 342042 from Patent EP1572962.
AK126620 - Homo sapiens cDNA FLJ44658 fis, clone BRACE3001973, weakly similar to Cadherin-related tumor suppressor precursor.
AK127104 - Homo sapiens cDNA FLJ45161 fis, clone BRAWH3043623.
JD362767 - Sequence 343791 from Patent EP1572962.
JD504773 - Sequence 485797 from Patent EP1572962.
JD496404 - Sequence 477428 from Patent EP1572962.
JD062703 - Sequence 43727 from Patent EP1572962.
AK091570 - Homo sapiens cDNA FLJ34251 fis, clone FCBBF5000041.
AX747066 - Sequence 591 from Patent EP1308459.
JD499027 - Sequence 480051 from Patent EP1572962.
JD375290 - Sequence 356314 from Patent EP1572962.
JD545274 - Sequence 526298 from Patent EP1572962.
JD036451 - Sequence 17475 from Patent EP1572962.
JD216969 - Sequence 197993 from Patent EP1572962.
JD475493 - Sequence 456517 from Patent EP1572962.
JD279419 - Sequence 260443 from Patent EP1572962.
JD514068 - Sequence 495092 from Patent EP1572962.
JD415645 - Sequence 396669 from Patent EP1572962.
JD252651 - Sequence 233675 from Patent EP1572962.
JD489889 - Sequence 470913 from Patent EP1572962.
JD273051 - Sequence 254075 from Patent EP1572962.
JD399407 - Sequence 380431 from Patent EP1572962.
JD116148 - Sequence 97172 from Patent EP1572962.
JD509266 - Sequence 490290 from Patent EP1572962.
JD083110 - Sequence 64134 from Patent EP1572962.
JD358859 - Sequence 339883 from Patent EP1572962.
JD527880 - Sequence 508904 from Patent EP1572962.
JD022659 - Sequence 3683 from Patent EP1572962.
JD027405 - Sequence 8429 from Patent EP1572962.
JD033584 - Sequence 14608 from Patent EP1572962.
JD034455 - Sequence 15479 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B5MDB0, CDHF15, ENST00000409404.1, ENST00000409404.2, ENST00000409404.3, ENST00000409404.4, ENST00000409404.5, FAT3_HUMAN, KIAA1989, NM_001008781, Q8TDW7, Q96AU6, uc001pdj.1, uc001pdj.2, uc001pdj.3, uc001pdj.4, uc001pdj.5
UCSC ID: ENST00000409404.6
RefSeq Accession: NM_001008781
Protein: Q8TDW7 (aka FAT3_HUMAN)

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.