NM_033100.4(CDHR1):c.1463dup (p.Ser489fs) AND not provided

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Apr 6, 2020
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

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:: RCV001381075.7

Allele description [Variation Report for NM_033100.4(CDHR1):c.1463dup (p.Ser489fs)]

NM_033100.4(CDHR1):c.1463dup (p.Ser489fs)

Gene:

CDHR1:cadherin related family member 1 [Gene - OMIM - HGNC]

Variant type:

Duplication

Cytogenetic location:

10q23.1

Genomic location:

Preferred name:

NM_033100.4(CDHR1):c.1463dup (p.Ser489fs)

HGVS:

NC_000010.11:g.84211143dup
NG_028034.1:g.21488dup
NM_001171971.3:c.1463dup
NM_033100.4:c.1463dupMANE SELECT
NP_001165442.1:p.Ser489fs
NP_149091.1:p.Ser489fs
NC_000010.10:g.85970894_85970895insG
NC_000010.10:g.85970899dup

Protein change:

S489fs

Links:

dbSNP: rs756678484

Molecular consequence:

NM_001171971.3:c.1463dup - frameshift variant - [Sequence Ontology: SO:0001589]
NM_033100.4:c.1463dup - frameshift variant - [Sequence Ontology: SO:0001589]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001579327	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Pathogenic (Apr 6, 2020)	germline	clinical testing	PubMed (5) [See all records that cite these PMIDs] 23044944, 23591405, 26103963, 26261414, 28492532

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV001579327

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Pathogenic
(Apr 6, 2020)

germline

clinical testing

PubMed (5)
[See all records that cite these PMIDs]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Identification of a novel mutation in the CDHR1 gene in a family with recessive retinal degeneration.

Duncan JL, Roorda A, Navani M, Vishweswaraiah S, Syed R, Soudry S, Ratnam K, Gudiseva HV, Lee P, Gaasterland T, Ayyagari R.

Arch Ophthalmol. 2012 Oct;130(10):1301-8. doi: 10.1001/archophthalmol.2012.1906.

PubMed [citation]

PMID:: 23044944
PMCID:: PMC3799916

Panel-based next generation sequencing as a reliable and efficient technique to detect mutations in unselected patients with retinal dystrophies.

Glöckle N, Kohl S, Mohr J, Scheurenbrand T, Sprecher A, Weisschuh N, Bernd A, Rudolph G, Schubach M, Poloschek C, Zrenner E, Biskup S, Berger W, Wissinger B, Neidhardt J.

Eur J Hum Genet. 2014 Jan;22(1):99-104. doi: 10.1038/ejhg.2013.72. Epub 2013 Apr 17.

PubMed [citation]

PMID:: 23591405
PMCID:: PMC3865404

See all PubMed Citations (5)

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV001579327.6

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (5)

Description

For these reasons, this variant has been classified as Pathogenic. Loss-of-function variants in CDHR1 are known to be pathogenic (PMID: 23044944, 23591405, 26103963, 26261414). This variant has not been reported in the literature in individuals with CDHR1-related conditions. This variant is not present in population databases (ExAC no frequency). This sequence change creates a premature translational stop signal (p.Ser489Leufs*47) in the CDHR1 gene. It is expected to result in an absent or disrupted protein product.

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Feb 15, 2026

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