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NM_004928.3(CFAP410):c.218G>C (p.Arg73Pro) AND Axial spondylometaphyseal dysplasia

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Aug 1, 2015
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV000492059.4

Allele description [Variation Report for NM_004928.3(CFAP410):c.218G>C (p.Arg73Pro)]

NM_004928.3(CFAP410):c.218G>C (p.Arg73Pro)

Gene:
CFAP410:cilia and flagella associated protein 410 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
21q22.3
Genomic location:
Preferred name:
NM_004928.3(CFAP410):c.218G>C (p.Arg73Pro)
Other names:
CFAP410, ARG73PRO (rs140451304)
HGVS:
  • NC_000021.9:g.44333188C>G
  • NG_032952.1:g.11215G>C
  • NM_001271440.2:c.218G>C
  • NM_001271441.2:c.218G>C
  • NM_001271442.1:c.95G>C
  • NM_004928.3:c.218G>CMANE SELECT
  • NP_001258369.1:p.Arg73Pro
  • NP_001258370.1:p.Arg73Pro
  • NP_001258371.1:p.Arg32Pro
  • NP_004919.1:p.Arg73Pro
  • NC_000021.8:g.45753071C>G
  • NM_001271440.1:c.218G>C
  • NM_001271441.1:c.218G>C
  • NM_004928.2:c.218G>C
Protein change:
R32P; ARG73PRO
Links:
OMIM: 603191.0001; dbSNP: rs140451304
NCBI 1000 Genomes Browser:
rs140451304
Molecular consequence:
  • NM_001271440.2:c.218G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001271441.2:c.218G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001271442.1:c.95G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_004928.3:c.218G>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Axial spondylometaphyseal dysplasia
Synonyms:
Axial SMD
Identifiers:
MONDO: MONDO:0011211; MedGen: C1865695; Orphanet: 168549; OMIM: 602271

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000580653OMIM
no assertion criteria provided
Pathogenic
(Aug 1, 2015)
germlineliterature only

PubMed (3)
[See all records that cite these PMIDs]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only

Citations

PubMed

Axial Spondylometaphyseal Dysplasia Is Caused by C21orf2 Mutations.

Wang Z, Iida A, Miyake N, Nishiguchi KM, Fujita K, Nakazawa T, Alswaid A, Albalwi MA, Kim OH, Cho TJ, Lim GY, Isidor B, David A, Rustad CF, Merckoll E, Westvik J, Stattin EL, Grigelioniene G, Kou I, Nakajima M, Ohashi H, Smithson S, et al.

PLoS One. 2016;11(3):e0150555. doi: 10.1371/journal.pone.0150555.

PubMed [citation]
PMID:
26974433
PMCID:
PMC4790905

An siRNA-based functional genomics screen for the identification of regulators of ciliogenesis and ciliopathy genes.

Wheway G, Schmidts M, Mans DA, Szymanska K, Nguyen TT, Racher H, Phelps IG, Toedt G, Kennedy J, Wunderlich KA, Sorusch N, Abdelhamed ZA, Natarajan S, Herridge W, van Reeuwijk J, Horn N, Boldt K, Parry DA, Letteboer SJF, Roosing S, Adams M, Bell SM, et al.

Nat Cell Biol. 2015 Aug;17(8):1074-1087. doi: 10.1038/ncb3201. Epub 2015 Jul 13.

PubMed [citation]
PMID:
26167768
PMCID:
PMC4536769
See all PubMed Citations (3)

Details of each submission

From OMIM, SCV000580653.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (3)

Description

In 5 sibs (family GC4693) with retinal dystrophy, severe scoliosis, and hip dysplasia (SMDAX; 602271), Wheway et al. (2015) identified homozygosity for a c.218G-C transversion (c.218G-C, NM_004928.2) in the C21ORF2 gene, resulting in an arg73-to-pro (R73P) substitution at a highly conserved residue within a leucine-rich repeat (LRR) domain. Their unaffected mother was heterozygous for the mutation, which was present in the Exome Variant Server database at a minor allele frequency of 0 to 0.01% and in the ExAC database at 0.03304% (37/111,976 alleles). DNA was unavailable from their unaffected father. In 2 of the male sibs, splenomegaly and reduced sperm motility were also observed. In a brother and sister from an unrelated family from Northern Ireland (UCL-111) who exhibited narrow thorax and pelvic bone malformations on skeletal surveys and developed retinal degeneration in childhood, Wheway et al. (2015) identified compound heterozygosity for the R73P mutation and a c.671T-C transition in C21ORF2, resulting in a leu224-to-pro (L224P; 603191.0002) substitution. A third sib from family UCL-111 who also carried both mutations had only cone-rod dystrophy and did not show any skeletal anomalies. Exogenous expression of the R73P or L224P variant in mIMCD3 cells partially rescued ciliogenesis after siRNA knockdown of endogenous C21orf2, suggesting that they represent hypomorphic mutations. In addition, R73P mutant RNA rescued the nek1 (604588)-null zebrafish phenotype less effectively than wildtype C21ORF2, and the L224P mutant had little effect, confirming the hypomorphic effect of both variants.

In a Turkish mother and son with SMDAX, and the mother's affected sister, as well as a 28-year-old Swedish woman, Wang et al. (2016) identified homozygosity for the R73P mutation in the C21ORF2 gene, located in the second LLR domain in the N-terminal conserved region. The mutation was absent in 100 Turkish controls, but was present in the ESP6500 and ExAC databases at very low allele frequencies (0.0154% and 0.0334%, respectively). Wang et al. (2016) stated that the skeletal phenotypes of the patients reported by Wheway et al. (2015) with the R73P mutation, who were studied as part of a Jeune syndrome (see 208500) cohort, were similar to their own axial SMD patients.

In a 30-year-old woman with short stature, extremely narrow thorax, severe scoliosis, and retinal dystrophy, McInerney-Leo et al. (2017) identified homozygosity for the recurrent R73P mutation in the C21ORF2 gene. The authors stated that this patient exhibited features of both Jeune syndrome and axial SMD, and noted that the extent of her thoracic involvement appeared to be more severe than in other C21ORF2-associated cases.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlinenot providednot providednot providednot providednot providednot providednot providednot provided

Last Updated: Oct 13, 2024