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NM_000523.4(HOXD13):c.916C>T (p.Arg306Trp) AND Synpolydactyly 1

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Nov 1, 2002
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:
RCV000016000.25

Allele description

NM_000523.4(HOXD13):c.916C>T (p.Arg306Trp)

Gene:
HOXD13:homeobox D13 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
2q31.1
Genomic location:
Preferred name:
NM_000523.4(HOXD13):c.916C>T (p.Arg306Trp)
Other names:
R298W
HGVS:
  • NC_000002.12:g.176094614C>T
  • NG_008137.1:g.6811C>T
  • NM_000523.4:c.916C>TMANE SELECT
  • NP_000514.2:p.Arg306Trp
  • NC_000002.11:g.176959342C>T
  • P35453:p.Arg306Trp
Protein change:
R306W; ARG298TRP
Links:
UniProtKB: P35453#VAR_031651; OMIM: 142989.0007; dbSNP: rs28933082
NCBI 1000 Genomes Browser:
rs28933082
Molecular consequence:
  • NM_000523.4:c.916C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Synpolydactyly 1 (SPD1)
Identifiers:
MONDO: MONDO:0008513; MedGen: C2699746; OMIM: 186000

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000036267OMIM
no assertion criteria provided
Pathogenic
(Nov 1, 2002)
germlineliterature only

PubMed (1)
[See all records that cite this PMID]

Summary from all submissions

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

Citations

PubMed

Severe digital abnormalities in a patient heterozygous for both a novel missense mutation in HOXD13 and a polyalanine tract expansion in HOXA13.

Debeer P, Bacchelli C, Scambler PJ, De Smet L, Fryns JP, Goodman FR.

J Med Genet. 2002 Nov;39(11):852-6. No abstract available.

PubMed [citation]
PMID:
12414828
PMCID:
PMC1735011

Details of each submission

From OMIM, SCV000036267.2

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

Description

In affected members of a 4-generation family with mild features of classic synpolydactyly (SPD1; 186000), Debeer et al. (2002) identified an 892C-T transition in the HOXD13 gene, resulting in an arg298-to-trp (R298W) mutation in the homeodomain of the protein. As arg298 is the thirty-first residue of the HOXD13 homeodomain, the authors referred to this mutation as ARG31TRP. The mutation was thought to destabilize the homeodomain-DNA complex. The digital abnormalities it produced closely resembled those produced by frameshifting deletions in HOXD13. Only 3 of 17 mutation carriers in the family had synpolydactyly, and in all 3 this was unilateral only, whereas none had synpolydactyly in the feet. However, affected members did have partial duplication of the second metatarsals, broad halluces, and hypoplasia or symphalangism of the middle phalanges of the foot. In 13, the only finding was bilateral fifth finger clinodactyly, raising the possibility that some patients with dominantly inherited isolated fifth finger clinodactyly (type A3 brachydactyly; 112700) may harbor mutations in HOXD13. One mutation carrier in the 4-generation family married a member of another family in which hand-foot-genital syndrome (140000) was caused by a polyalanine tract expansion in the HOXA13 gene (142959.0007). The couple produced a girl heterozygous for both mutations who had digital abnormalities strikingly more severe than those in carriers of either individual mutation, indicating that the 2 mutations acted synergistically.

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

Last Updated: Jun 15, 2021