DNAAF2
Basic information
Region (hg38): 14:49625174-49635244
Previous symbols: [ "C14orf104" ]
Links
Phenotypes
GenCC
Source:
- primary ciliary dyskinesia 10 (Strong), mode of inheritance: AR
- primary ciliary dyskinesia 10 (Moderate), mode of inheritance: AR
- primary ciliary dyskinesia 10 (Strong), mode of inheritance: AR
- primary ciliary dyskinesia (Supportive), mode of inheritance: AD
- primary ciliary dyskinesia 10 (Definitive), mode of inheritance: AR
Clinical Genomic Database
Source:
Condition | Inheritance | Intervention Categories | Intervention/Rationale | Manifestation Categories | References |
---|---|---|---|---|---|
Ciliary dyskinesia, primary, 10 | AR | Allergy/Immunology/Infectious; Audiologic/Otolaryngologic; Cardiovascular; Pulmonary | Pulmonary and audiologic surveillance may be beneficial to assess respiratory and hearing function and institute early management measures; In order to facilitate mucus clearance, aggressive interventions (eg, chest percussion and oscillatory vest), as well as vaccinations and early and aggressive treatment of respiratory infections may be beneficial, though measures including lobectomy or lung transplantation may be necessary; Individuals may require surgery or other interventions related to congenital cardiac malformations | Allergy/Immunology/Infectious; Audiologic/Otolaryngologic; Cardiovascular; Gastrointestinal; Pulmonary | 19052621; 20301301; |
ClinVar
This is a list of variants' phenotypes submitted to
- Primary ciliary dyskinesia (24 variants)
- Primary ciliary dyskinesia 10 (2 variants)
Variants pathogenicity by type
Statistics on ClinVar variants can assist in determining whether a specific variant type in the DNAAF2 gene is commonly pathogenic or not.
In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.
Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.
Variant type | Pathogenic | Likely pathogenic | VUS | Likely benign | Benign | Sum |
---|---|---|---|---|---|---|
synonymous | 140 | 150 | ||||
missense | 211 | 15 | 229 | |||
nonsense | 15 | |||||
start loss | 0 | |||||
frameshift | 16 | 22 | ||||
inframe indel | 4 | |||||
splice donor/acceptor (+/-2bp) | 0 | |||||
splice region | 2 | 1 | 3 | |||
non coding | 10 | 11 | 26 | |||
Total | 25 | 8 | 229 | 165 | 19 |
Highest pathogenic variant AF is 0.00000657
Variants in DNAAF2
This is a list of pathogenic ClinVar variants found in the DNAAF2 region.
You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.
Position | Type | Phenotype | Significance | ClinVar |
---|---|---|---|---|
14-49625214-T-A | Congenital disorder of glycosylation • Primary ciliary dyskinesia • Primary ciliary dyskinesia 10 | Benign (Jan 12, 2018) | ||
14-49625247-TAAAAC-T | Primary ciliary dyskinesia | Uncertain significance (Jun 14, 2016) | ||
14-49625329-T-C | Primary ciliary dyskinesia 10 | Uncertain significance (Jan 13, 2018) | ||
14-49625351-T-C | Primary ciliary dyskinesia 10 | Uncertain significance (Jan 13, 2018) | ||
14-49625359-CA-C | Primary ciliary dyskinesia | Conflicting classifications of pathogenicity (Aug 15, 2019) | ||
14-49625359-C-CA | Benign (Aug 10, 2019) | |||
14-49625385-T-C | Primary ciliary dyskinesia 10 | Uncertain significance (Jan 13, 2018) | ||
14-49625416-A-T | Congenital disorder of glycosylation • Primary ciliary dyskinesia • Primary ciliary dyskinesia 10 | Benign (Apr 10, 2019) | ||
14-49625542-T-C | Primary ciliary dyskinesia | Likely benign (Oct 11, 2023) | ||
14-49625551-A-G | Primary ciliary dyskinesia | Likely benign (Aug 02, 2019) | ||
14-49625553-C-A | Primary ciliary dyskinesia | Uncertain significance (Sep 27, 2022) | ||
14-49625557-T-C | Primary ciliary dyskinesia | Likely benign (Oct 20, 2023) | ||
14-49625566-A-G | Primary ciliary dyskinesia | Likely benign (Jun 25, 2023) | ||
14-49625566-AT-A | Primary ciliary dyskinesia | Uncertain significance (May 04, 2022) | ||
14-49625581-T-C | Primary ciliary dyskinesia | Likely benign (Oct 22, 2019) | ||
14-49625596-A-G | Primary ciliary dyskinesia • DNAAF2-related disorder | Likely benign (Jul 27, 2021) | ||
14-49625607-T-C | Primary ciliary dyskinesia | Uncertain significance (Jan 10, 2019) | ||
14-49625610-C-T | Primary ciliary dyskinesia | Uncertain significance (Aug 10, 2022) | ||
14-49625616-C-A | Primary ciliary dyskinesia | Uncertain significance (Oct 24, 2018) | ||
14-49625627-T-C | Primary ciliary dyskinesia | Uncertain significance (Feb 14, 2018) | ||
14-49625628-G-A | Primary ciliary dyskinesia 10 • Primary ciliary dyskinesia | Conflicting classifications of pathogenicity (Jul 05, 2022) | ||
14-49625630-A-C | Primary ciliary dyskinesia | Uncertain significance (Aug 11, 2022) | ||
14-49625633-T-C | Primary ciliary dyskinesia | Uncertain significance (Nov 27, 2023) | ||
14-49625635-G-C | Primary ciliary dyskinesia | Likely benign (Nov 24, 2019) | ||
14-49625640-C-A | Primary ciliary dyskinesia | Uncertain significance (Jul 05, 2021) |
GnomAD
Source:
Gene | Type | Bio Type | Transcript | Coding Exons | Length |
---|---|---|---|---|---|
DNAAF2 | protein_coding | protein_coding | ENST00000298292 | 3 | 10057 |
pLI Probability LOF Intolerant | pRec Probability LOF Recessive | Individuals with no LOFs | Individuals with Homozygous LOFs | Individuals with Heterozygous LOFs | Defined | p |
---|---|---|---|---|---|---|
6.48e-9 | 0.672 | 125522 | 0 | 66 | 125588 | 0.000263 |
Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible in Transcript | |
---|---|---|---|---|---|---|
Missense | -0.252 | 467 | 452 | 1.03 | 0.0000207 | 5324 |
Missense in Polyphen | 156 | 148.6 | 1.0498 | 1743 | ||
Synonymous | -1.33 | 224 | 200 | 1.12 | 0.00000968 | 1753 |
Loss of Function | 1.31 | 16 | 22.7 | 0.703 | 9.67e-7 | 307 |
LoF frequencies by population
Ethnicity | Sum of pLOFs | p |
---|---|---|
African & African-American | 0.000975 | 0.000965 |
Ashkenazi Jewish | 0.000103 | 0.0000993 |
East Asian | 0.000337 | 0.000326 |
Finnish | 0.00 | 0.00 |
European (Non-Finnish) | 0.000202 | 0.000194 |
Middle Eastern | 0.000337 | 0.000326 |
South Asian | 0.000264 | 0.000261 |
Other | 0.000676 | 0.000653 |
dbNSFP
Source:
- Function
- FUNCTION: Required for cytoplasmic pre-assembly of axonemal dyneins, thereby playing a central role in motility in cilia and flagella. Involved in pre-assembly of dynein arm complexes in the cytoplasm before intraflagellar transport loads them for the ciliary compartment. {ECO:0000255|HAMAP-Rule:MF_03069}.;
- Disease
- DISEASE: Ciliary dyskinesia, primary, 10 (CILD10) [MIM:612518]: A disorder characterized by abnormalities of motile cilia. Respiratory infections leading to chronic inflammation and bronchiectasis are recurrent, due to defects in the respiratory cilia; reduced fertility is often observed in male patients due to abnormalities of sperm tails. Half of the patients exhibit randomization of left-right body asymmetry and situs inversus, due to dysfunction of monocilia at the embryonic node. Primary ciliary dyskinesia associated with situs inversus is referred to as Kartagener syndrome. {ECO:0000269|PubMed:19052621, ECO:0000269|PubMed:25186273}. Note=The disease is caused by mutations affecting the gene represented in this entry.;
Haploinsufficiency Scores
- pHI
- 0.427
- hipred
- N
- hipred_score
- 0.204
- ghis
- 0.458
Essentials
- essential_gene_CRISPR
- N
- essential_gene_CRISPR2
- S
- essential_gene_gene_trap
- H
- gene_indispensability_pred
- N
- gene_indispensability_score
- 0.114
Gene Damage Prediction
All | Recessive | Dominant | |
---|---|---|---|
Mendelian | High | Medium | High |
Primary Immunodeficiency | High | High | High |
Cancer | High | High | High |
Mouse Genome Informatics
- Gene name
- Dnaaf2
- Phenotype
- mortality/aging (the observable characteristics related to the ability of a mammalian organism to live and age that are manifested throughout development and life span); hematopoietic system phenotype; cardiovascular system phenotype (the observable morphological and physiological characteristics of the mammalian heart, blood vessels, or circulatory system that are manifested through development and lifespan); respiratory system phenotype; behavior/neurological phenotype (the observable actions or reactions of mammalian organisms that are manifested through development and lifespan); nervous system phenotype (the observable morphological and physiological characteristics of the extensive, intricate network of electochemical structures in the body that is comprised of the brain, spinal cord, nerves, ganglia and parts of the receptor organs that are manifested through development and lifespan); digestive/alimentary phenotype; growth/size/body region phenotype; cellular phenotype; homeostasis/metabolism phenotype;
Gene ontology
- Biological process
- cilium-dependent cell motility;axonemal dynein complex assembly
- Cellular component
- cytoplasm;cytosol
- Molecular function
- protein binding