Gene
WDFY3
WD repeat and FYVE domain containing 3
- HGNC 20751(opens in a new tab)
- Ensembl gene ENSG00000163625(opens in a new tab)
- NCBI Gene 23001(opens in a new tab)
Summary
- Cytogenetic location
- 4q21.23
- Coordinates
- Chromosome 4: 84,669,597–84,966,690 (GRCh38)
- Exons
- 68 exons across 297.1 kb
- Protein
- 3,526 amino acids
- Also known as
- KIAA0993, ALFY, ZFYVE25
- MANE Select transcript
- ENST00000295888.9NM_014991.6
- Locus type
- gene with protein product
Reference genomeGRCh38hg38
Positions on gene and variant pages follow this choice, in this browser.
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Intellectual Disability
One of 233 genes linked to it
- ClinGen rates the link definitive
- 1 GenCC submitter rates it definitive or strong
How WDFY3 is laid out
- Coding sequence
- Untranslated region
- Intron
- Direction of transcription
- Known disease-causing sites
- Stretches short reads find hard
Exons of the gene's MANE Select transcript (release v1.5), from NCBI and EMBL-EBI, on the GRCh38 reference genome.
Chromosome bands from UCSC's GRCh38 ideogram (2022-10-29).
Nearby genes from Ensembl release 116, on GRCh38.
Exons make up 14.6 kb of the gene's 297.1 kb; 10,581 of those bases code for the protein.
How a genome test reads WDFY3
33
positions in WDFY3 where ClinVar classes a change as pathogenic or likely pathogenic
None of them falls in a region short reads find hard.
A whole genome covers all 297.1 kb of WDFY3, introns included, not only the 14.6 kb of exons.
Traits linked to WDFY3
The Human Phenotype Ontology lists these as features of the rare conditions WDFY3 can cause. Each trait's page lists the other genes linked to it.
External links
Gene records
Transcript
Protein
Where this comes from
- HGNC: the gene's symbol, name, other symbols and location.
- MANE Select v1.5, from NCBI and EMBL-EBI: the transcript, its exons and coding sequence.
- GenCC and ClinGen, released 2026-10-16: which conditions the gene is linked to, and how strongly.
- The ACMG secondary findings list, SF v3.2.
- ClinVar and the GIAB stratifications: known disease-causing sites, and the regions short reads find hard.
- The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
- Data release 2026.10.16-c6eea6bf.
Cite this page
Dante Labs. (n.d.). WDFY3 gene: WD repeat and FYVE domain containing 3. Retrieved 17 October 2026, from https://dantelabs.com/genes/wdfy3
Dante Labs. WDFY3 gene: WD repeat and FYVE domain containing 3 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/wdfy3
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