CFAP99

protein-coding

cilia and flagella associated protein 99, the group of Cilia and flagella associated

Gene summary

Predicted to be located in motile cilium. [provided by Alliance of Genome Resources, Jul 2025]

MANE transcript

NM_001193282.4

Inheritance

—

ClinVar variants

U:159B:7

Top phenotype

—

Max pathogenic AF

—

Genomic locus

chr4:2,418,955-2,463,002

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~44.0 kb
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GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

No GenCC data available for this gene.

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to CFAP99 variants in ClinVar

1 Conditions Cataloged
not specifiedTotal: 166

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_001193282.4. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
0
missense
159
clinvar
7
clinvar
166
nonsense
0
start loss
0
frameshift
0
splice donor/acceptor (+/-2bp)
0
Total0015970166
Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 6 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_001193282.4RefSeqNP_001180211.215MANE Select
ENST00000635017.2EnsemblENSP00000488922.215MANE Select
ENST00000860043.1EnsemblENSP00000530102.115Standard
ENST00001026765.1EnsemblENSP00000696582.16Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Cellular Component

  • motile cilium

dbNSFP Gene Annotations

Source: dbNSFP

For research and educational, non-commercial use only. Not for clinical or diagnostic use. GeneBe does not provide medical advice. Data use for AI modeling is prohibited: if used, the cost is $0.001 per byte of downloaded uncompressed data.